WorldWideScience

Sample records for tsirkonievoj soli dibutilfosfornoj

  1. Solis Planum Craters

    Science.gov (United States)

    2005-01-01

    15 January 2004 This Mars Global Surveyor (MGS) Mars Orbiter Camera (MOC) image shows several meteor impact craters on Solis Planum. The second-largest crater in this scene is relatively young and fresh, exhibiting arrayed ejecta pattern and numerous boulders near its raised rim. The image covers an area about 3 km (1.9 mi) wide and is illuminated by sunlight from the upper left. The craters are located near 19.8oS, 85.5oW.

  2. Solar Synoptic Products from SOLIS

    Science.gov (United States)

    Henney, Carl J.; SOLIS Team

    2007-05-01

    The Synoptic Optical Long-term Investigations of the Sun (SOLIS) project records the solar photospheric and chromospheric daily. SOLIS is currently comprised of two instruments: the Vector Spectromagnetograph (VSM) and the Integrated Sunlight Spectrometer (ISS). A third instrument, Full Disk Patrol (FDP), is expected to be installed within a year. Area-scans and full-disk photospheric and chromospheric longitudinal magnetograms are recorded daily as part of the VSM nominal observing program. Since August 2003, the VSM has recorded full-disk photospheric vector magnetograms at least weekly and, since November 2006, area-scans of active regions daily. Quick-look vector images are now publicly available daily. In the near future, a typical observing day will include three full-disk photospheric vector magnetograms. Carrington rotation and daily synoptic maps are also available from the photospheric magnetograms and coronal hole estimate images. In addition, calibrated ISS spectra and parameter time series data are available publicly. Synoptic products and recent science results will be highlighted in this presentation. The SOLIS synoptic products are available on the NSO-SOLIS web site at: http://solis.nso.edu/. SOLIS VSM data used here are produced cooperatively by NSF/NSO and NASA/GSFC. The National olar Observatory is operated by AURA, Inc. under a cooperative agreement with the National Science Foundation.

  3. SOLIS: status, data products & science

    Science.gov (United States)

    Henney, C. J.; SOLIS Team

    2007-12-01

    The SOLIS project is currently operating two instruments, the Vector Spectromagnetograph (VSM) and the Integrated Sunlight Spectrometer (ISS). A third instrument, the Full Disk Patrol (FDP), is expected to be installed during 2008. Solar area-scans and full-disk photospheric and chromospheric longitudinal magnetograms are recorded daily as part of the VSM nominal observing program. Since August 2003, the VSM has recorded full-disk photospheric vector magnetograms at least weekly and, since November 2006, area-scans of active regions daily. Quick-look vector magnetic FITS formatted data and JPEG images are publicly available daily. In the near future, a typical VSM observing day will include three full-disk photospheric vector magnetograms. Carrington rotation and daily synoptic maps are also available from the photospheric magnetograms and coronal hole estimate images. In addition, calibrated ISS spectra are available as both FITS formatted data and JPEG image files. Also, Ca II K-line parameter time series data are available publicly as text formatted data and JPEG image files. These synoptic products, along with recent science results, will be summarized in this presentation. The SOLIS synoptic products are available at: http://solis.nso.edu/. SOLIS VSM data used here are produced cooperatively by NSF/NSO and NASA/LWS. The NSO is operated by AURA, Inc. under a cooperative agreement with the NSF.

  4. Tsukamurella soli sp. nov., isolated from soil.

    Science.gov (United States)

    Weon, Hang-Yeon; Yoo, Seung-Hee; Anandham, Rangasamy; Schumann, Peter; Kroppenstedt, Reiner M; Kwon, Soon-Wo; Stackebrandt, Erko

    2010-07-01

    A Gram-positive, rod-shaped, catalase-positive, oxidase-negative, white-coloured bacterium, designated strain JS18-1(T), was isolated from a soil sample collected from Halla mountain, Jeju island, Korea. 16S rRNA gene sequence analysis revealed that the strain was most closely related to members of the genus Tsukamurella with levels of sequence similarity of 95.4-96.5 %. Strain JS18-1(T) shared highest 16S rRNA gene sequence similarity with Tsukamurella strandjordii DSM 44573(T) (96.5 %), Tsukamurella carboxydivorans Y2(T) (96.4 %) and Tsukamurella tyrosinosolvens DSM 44234(T) (96.4 %). The G+C content of the total DNA of strain JS18-1(T) was 70 mol%. The cell-wall peptidoglycan type was A1gamma and mycolic acids were also detected. The predominant polar lipids were diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol. The major quinone was menaquinone-9 (MK-9) and major cell-wall sugars were arabinose, ribose and glucose. The major fatty acids (>10 % of the total fatty acids) were C(16 : 0), C(18 : 1)omega9c, C(18 : 0) 10-methyl and summed feature 3 (C(16 : 1)omega7c and/or iso-C(15 : 0) 2-OH). Phylogenetic analysis based on 16S rRNA gene sequences and chemotaxonomic, biochemical and physiological characteristics indicate that strain JS18-1(T) represents a novel species of the genus Tsukamurella, for which the name Tsukamurella soli sp. nov. is proposed. The type strain is JS18-1(T) (=KACC 20764(T)=DSM 45046(T)).

  5. Inversions of High-Cadence SOLIS-VSM Stokes Observations

    NARCIS (Netherlands)

    Fischer, C.E.; Keller, C.U.; Snik, F.

    2008-01-01

    We have processed full-Stokes observations made with the SOLIS-VSM using Fe I 630.15 and Fe I 630.25 nm. The data have high spectral and temporal resolution, moderate spatial resolution, and large polarimetric sensitivity and accuracy. We use the code LILIA, an LTE inversion code written by

  6. High Turbidity Solis Clear Sky Model: Development and Validation

    Directory of Open Access Journals (Sweden)

    Pierre Ineichen

    2018-03-01

    Full Text Available The Solis clear sky model is a spectral scheme based on radiative transfer calculations and the Lambert–Beer relation. Its broadband version is a simplified fast analytical version; it is limited to broadband aerosol optical depths lower than 0.45, which is a weakness when applied in countries with very high turbidity such as China or India. In order to extend the use of the original simplified version of the model for high turbidity values, we developed a new version of the broadband Solis model based on radiative transfer calculations, valid for turbidity values up to 7, for the three components, global, beam, and diffuse, and for the four aerosol types defined by Shettle and Fenn. A validation of low turbidity data acquired in Geneva shows slightly better results than the previous version. On data acquired at sites presenting higher turbidity data, the bias stays within ±4% for the beam and the global irradiances, and the standard deviation around 5% for clean and stable condition data and around 12% for questionable data and variable sky conditions.

  7. A functional pectin methylesterase inhibitor protein (SolyPMEI) is expressed during tomato fruit ripening and interacts with PME-1.

    Science.gov (United States)

    Reca, Ida Barbara; Lionetti, Vincenzo; Camardella, Laura; D'Avino, Rossana; Giardina, Thierry; Cervone, Felice; Bellincampi, Daniela

    2012-07-01

    A pectin methylesterase inhibitor (SolyPMEI) from tomato has been identified and characterised by a functional genomics approach. SolyPMEI is a cell wall protein sharing high similarity with Actinidia deliciosa PMEI (AdPMEI), the best characterised inhibitor from kiwi. It typically affects the activity of plant pectin methylesterases (PMEs) and is inactive against a microbial PME. SolyPMEI transcripts were mainly expressed in flower, pollen and ripe fruit where the protein accumulated at breaker and turning stages of ripening. The expression of SolyPMEI correlated during ripening with that of PME-1, the major fruit specific PME isoform. The interaction of SolyPMEI with PME-1 was demonstrated in ripe fruit by gel filtration and by immunoaffinity chromatography. The analysis of the zonal distribution of PME activity and the co-localization of SolyPMEI with high esterified pectins suggest that SolyPMEI regulates the spatial patterning of distribution of esterified pectins in fruit.

  8. Pseudomonas soli sp. nov., a novel producer of xantholysin congeners.

    Science.gov (United States)

    Pascual, Javier; García-López, Marina; Carmona, Cristina; Sousa, Thiciana da S; de Pedro, Nuria; Cautain, Bastien; Martín, Jesús; Vicente, Francisca; Reyes, Fernando; Bills, Gerald F; Genilloud, Olga

    2014-09-01

    A chemoorganotrophic Gram-negative bacterium was isolated by means of a diffusion sandwich system from a soil sample from the Sierra Nevada National Park, Spain. Strain F-279,208(T) was oxidase and catalase positive, strictly aerobic, non-spore-forming and motile by single polar flagellum. Phylogenetic analysis of the 16S rRNA, gyrB, rpoB and rpoD genes revealed that strain F-279,208(T) belongs to the Pseudomonas putida group with Pseudomonas mosselii and Pseudomonas entomophila as its closest relatives. DNA-DNA hybridization assays and phenotypic traits confirmed that this strain belongs to a novel species of the genus Pseudomonas, for which the name Pseudomonas soli sp. nov. is proposed. The type strain is F-279,208(T) (=DSM 28043(T)=LMG 27941(T)), and during fermentation it produces xantholysins, a family of lipodepsipeptides. The major compound, xantholysin A, showed an interesting activity in a RCC4 kidney tumor cell line with inactivation of VHL linked with the HIF pathway, without any cytotoxic effects against other human tumor cell lines tested including, liver, pancreas and breast. Copyright © 2014 Elsevier GmbH. All rights reserved.

  9. Stokes Inversion Techniques for the SOLIS-VSM

    Science.gov (United States)

    Henney, C. J.; Keller, C. U.; Jones, H. P.; SOLIS Team

    2002-05-01

    The Vector Spectromagnetograph (VSM) instrument of the Synoptic Optical Long-term Investigations of the Sun (SOLIS) project will begin operation in 2002 and provide a 25 year record of synoptic solar observations. The 50-cm aperture VSM will provide daily full-disk photospheric vector and high sensitivity longitudinal magnetograms. In addition, the VSM will produce daily full-disk chormospheric longitudinal magnetograms, along with 1083 nm equivalent width images. Current data transmission and storage resources are such that the reduction of VSM data will be performed at the observing site on Kitt Peak. Reduced data products will be transmitted via a DS3 link from Kitt Peak to the National Solar Observatory's digital archive in Tucson. During a typical observing day, three full-disk photospheric vector magnetograms will be available over the web in two stages: first, as a ``quick-look'' product within 10 minutes of data acquisition, and then as a full Milne-Eddington (ME) inversion product within 24 hours of each observation. The quick-look parameters will include estimates of the magnetic field strength, azimuth and inclination based on Auer, Heasley, House (1977, Solar Physics 55, p. 47). The high-precision vector products will be determined with the High Altitude Observatory ME inversion technique implemented by Skumanich and Lites (1987, ApJ, 322, p.473). The flexible design of the VSM data handling system can incorporate future improvements under consideration (e.g., principal component analysis). However, since the original Stokes profiles observed will not be archived, a retrospective reduction of VSM data will not be possible. Quick-look and full ME inversion results are compared using simulated VSM Stokes profile data based on Kitt Peak Vacuum Telescope magnetograms. This research was supported in part by the Office of Naval Research Grant N00014-91-J-1040.

  10. Calibration and Data Analysis for the SOLIS-VSM

    Science.gov (United States)

    Henney, C. J.; Harvey, J. W.; Keller, C. U.; Jones, H. P.; SOLIS Team

    2003-05-01

    The Vector Spectromagnetograph (VSM) instrument of the Synoptic Optical Long-term Investigations of the Sun (SOLIS) project will provide a unique 25-year record of synoptic solar observations with daily full-disk photospheric vector and high sensitivity longitudinal magnetograms. In addition, the VSM will produce daily full-disk chromospheric longitudinal magnetograms along with various He I 1083 nm parameter images. The VSM is being prepared for installation at a temporary site in Tucson for a comparison period with observations from the Kitt Peak Vacuum Telescope (KPVT). After the cross-calibration period, the VSM will replace the KPVT spectromagnetograph at Kitt Peak. We outline the various VSM data products, with emphasis on the calibration and data reduction efforts. The data transmission and storage resources are such that the reduction of VSM data will be performed at the observing site on Kitt Peak. Reduced data products will be transmitted via a DS3 link from Kitt Peak to the National Solar Observatory's digital archive in Tucson. During a typical observing day, three full-disk photospheric vector magnetograms will be available over the Internet in two stages: first, as a ``quick-look'' product within 10 minutes of data acquisition, and then as a full Milne-Eddington (ME) inversion product within 12 hours of each observation. The quick-look parameters will include estimates of the magnetic field strength, azimuth and inclination based on Auer, Heasley, House (1977, Solar Physics 55, p. 47). The high-precision vector products will be determined with the High Altitude Observatory ME inversion technique implemented by Skumanich and Lites (1987, ApJ, 322, p.473). The flexible design of the VSM data handling system can incorporate future improvements under consideration (e.g., principal component analysis). This research was supported in part by the Office of Naval Research Grant N00014-91-J-1040.

  11. Microvirga soli sp. nov., an alphaproteobacterium isolated from soil.

    Science.gov (United States)

    Dahal, Ram Hari; Kim, Jaisoo

    2017-01-01

    An aerobic, Gram-stain-negative, catalase-positive and oxidase-negative, non-motile, non-spore-forming, rod-shaped, pink-pigmented bacterium designated strain R491T was isolated from soil. Flexirubin-type pigments were absent. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain R491T formed a lineage within the family Methylobacteriaceae of the phylum Proteobacteria that was distinct from various species of the genus Microvirga, including Microvirgaaerilata 5420S-16T (97.83 % 16S rRNA gene sequence similarity), Microvirga zambiensis WSM3693T (97.76 %), Microvirga flocculans ATCC BAA-817T (97.41 %), and Microvirga lupini Lut6T, Microvirga subterranea DSM 14364T, Microvirga vignae BR3299T, and Microvirga guangxiensis 25BT (96.99 %). The major polar lipids of strain R491T were phosphatidylcholine, phosphatidylglycerol and phosphatidylethanolamine. The major cellular fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c; 71.2 %), C16 : 0 (12.0 %), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c; 4.7 %), and C18 : 0 (4.2 %). The DNA G+C content of strain R491T was 61.8 mol%. DNA-DNA hybridization values between strain R491T and other members of the genus Microvirga ranged from 27 to 57 %. On the basis of phenotypic, genotypic and phylogenetic analyses, strain R491T represents a novel species of the genus Microvirga, for which the name Microvirga soli sp. nov. is proposed. The type strain is R491T (=KEMB 9005-408T=KACC 18969T=NBRC 112417T).

  12. Soli o accompagnati. Riflessioni da uno sportello pubblico (passando per Philip K. Dick

    Directory of Open Access Journals (Sweden)

    Nicola Messina

    2006-12-01

    Full Text Available Nell'attimo in cui il mio cervello percepì la consistenza del viale su cui ero uscito, preso da sconforto, misi a fuoco l'idea dell'esistenza di uno spazio temporale. La conoscenza/comprensione di altre entità: questo sta alla base della differenza tra essere soli o accompagnati.

  13. Vector magnetic field inversions of high cadence SOLIS-VSM data

    NARCIS (Netherlands)

    Fischer, C.E.; Keller, C.U.; Snik, F.

    2007-01-01

    We have processed full Stokes observations from the SOLIS VSM in the photospheric lines Fe I 630.15 nm and 630.25 nm. The data sets have high spectral and temporal resolution, moderate spatial resolution, and large polarimetric sensitivity and accuracy. We used the LILIA, an LTE code written by

  14. Biotransformation of ferulic acid to 4-vinylguaiacol by Enterobacter soli and E. aerogenes.

    Science.gov (United States)

    Hunter, William J; Manter, Daniel K; van der Lelie, Daniel

    2012-12-01

    We investigated the conversion of ferulic acid to 4-vinylguaiacol (4-VG), vanillin, vanillyl alcohol, and vanillic acid by five Enterobacter strains. These high-value chemicals are usually synthesized by chemical methods but biological synthesis adds market value. Ferulic acid, a relatively inexpensive component of agricultural crops, is plentiful in corn hulls, cereal bran, and sugar-beet pulp. Two Enterobacter strains, E. soli, and E. aerogenes, accumulated 550-600 ppm amounts of 4-VG when grown in media containing 1,000 ppm ferulic acid; no accumulations were observed with the other strains. Decreasing the amount of ferulic acid present in the media increased the conversion efficiency. When ferulic acid was supplied in 500, 250, or 125 ppm amounts E. aerogenes converted ~72 % of the ferulic acid present to 4-VG while E. soli converted ~100 % of the ferulic acid to 4-VG when supplied with 250 or 125 ppm amounts of ferulic acid. Also, lowering the pH improved the conversion efficiency. At pH 5.0 E. aerogenes converted ~84 % and E. soli converted ~100 % of 1,000 ppm ferulic acid to 4-VG. Only small, 1-5 ppm, accumulations of vanillin, vanillyl alcohol, and vanillic acid were observed. E. soli has a putative phenolic acid decarboxylase (PAD) that is 168 amino acids long and is similar to PADs in other enterobacteriales; this protein is likely involved in the bioconversion of ferulic acid to 4-VG. E. soli or E. aerogenes might be useful as a means of biotransforming ferulic acid to 4-VG.

  15. The Constantinian «Dies Solis» Law in its Political and Legislative Context

    Directory of Open Access Journals (Sweden)

    Esteban MORENO RESANO

    2011-03-01

    Full Text Available The so-called «Dies Solis» Law, enacted by Constantine in 321, established the Day of the Sun as a public feast (dies festus in the Roman official calendar. This law can be studied in the political and legislative context between the first (314-315 and the second (324 civil war between Constantine and Licinius. This study reveals that its main purposes were the reinforcement of the imperial authority with administrative effects and the adoption, with propagandistic regards, of a religious policy on heathen cults different from the one developed by Licinius. The Dies Solis law is inscribed, in fact, in a joint of Constantinian norms that aim to make the imperial legislation an efficient instrument of government. Moreover, while Licinius promoted the hellenistic syncretic heathen cults, Constantine presented himself as a defender of the Roman religious traditions.

  16. Design of a Full Stokes Polarimeter for Chromospheric Measurements with SOLIS/VSM

    Science.gov (United States)

    Gosain, S.; Harvey, J. W.

    2015-10-01

    The synoptic observations of the magnetic field of the Sun have continued at the National Solar Observatory (NSO) since 1970s. The daily full-disk maps of the longitudinal magnetic field are regularly combined to form Carrington maps of the photospheric magnetic flux per solar rotation. These maps continue to be used by the international research community for a variety of studies related to solar magnetism as well as for space weather studies. The current NSO synoptic facility is the Synoptic Optical Long-term Investigation of the Sun (SOLIS), which regularly provides photospheric vector and chromospheric longitudinal full-disk magnetograms, among other data products. In the near future, an upgrade of SOLIS to produce chromospheric vector magnetograms is planned. We present the design of a new polarization modulator package for full Stokes polarimetry of the chromospheric Ca II 854.2 nm spectral line.

  17. Status of the Synoptic Optical Long-Term Investigations of the Sun (SOLIS) Facility

    Science.gov (United States)

    Harvey, J.; SOLIS Team

    2003-05-01

    SOLIS is a suite of three instruments and a data handling system designed to provide synoptic solar observations for at least two decades. The facility is now commencing initial operations at a temporary observing site in Tucson. After a period of simultaneous observations with the NSO/NASA Kitt Peak spectromagnetograph, SOLIS will be moved to Kitt Peak where it will replace that instrument and the 30-year-old Vacuum Telescope. The SOLIS Vector SpectroMagnetograph (VSM) is a compact, helium-filled, high-throughput, 50-cm aperture telescope and spectrograph that nominally scans the entire solar disk in 15 minutes. It provides the first full-disk photospheric vector magnetograms, high-sensitivity photospheric and chromospheric longitudinal magnetograms, and 1083 nm He I chromospheric spectral maps. The VSM is initially operating with interim cameras that are noisier and slower than originally planned. A 15 cm Full Disk Patrol (FDP) instrument provides full-disk filtergrams captured by 2k x 2k CCD cameras using either a 1083 nm or a tunable (380-660 nm) narrow-band filter. Until it is finished, the tunable filter is temporarily replaced by an H-alpha filter. The VSM and FDP are mounted on separate declination axes attached to a right ascension drive. This allows the FDP to be pointed at the sun center while the VSM scans the solar disk in the declination direction. The final instrument is an Integrated Sunlight Spectrometer (ISS). The ISS is a double-pass spectrograph that produces high-quality spectra for sun-as-a-star studies. It is located in a temperature-controlled room and fed by a fiber-optic image-scrambling system that is mounted on the FDP. Data from all of the instruments is collected by an on-site storage area network and preliminary reduction done by a collection of 14 Linux computers. Archival storage of the data is on LTO tapes and the data products are transmitted to Tucson via a 45 Mbs link where they are kept on line and web-available using a RAID 5

  18. A Novel Approach to Fast SOLIS Stokes Inversion for Photospheric Vector Magnetography.

    Science.gov (United States)

    Harker, Brian; Mighell, K.

    2009-05-01

    The SOLIS (Synoptic Optical Long-term Investigations of the Sun) Vector Spectromagnetograph (VSM) is a full-disc spectropolarimeter, located at Kitt Peak National Observatory, which records Zeeman-induced polarization in the magnetically-sensitive FeI spectral lines at 630.15 nm and 630.25 nm. A SOLIS VSM full-disc dataset consists of 2048 scanlines, with each scanline containing the Stokes I, Q, U, and V spectral line profiles in 128 unique wavelength bins for all 2048 pixels in the scanline. These Stokes polarization profiles are inverted to obtain the magnetic and thermodynamic structure of the observations, based on a model Milne-Eddington plane-parallel atmosphere. Until recently, this has been a compute-intensive, relatively slow process. This poster presents a novel method of producing such model-based characterizations of the photospheric magnetic field by utilizing an inversion engine based on a genetic algorithm. The algorithm executes in a heterogeneous compute environment composed of both a CPU and a graphics processing unit (GPU). Using the cutting-edge NVIDIA CUDA platform, we are able to offload the compute-intensive portions of the inversion code to the GPU, which results in significant speedup. This speedup provides the impetus which has driven the development of this strategy. Currently, SOLIS vector magnetic field products are generated with a modified version of the HAO ASP inversion code developed by Skumanich & Lites (1987), and these data products are made available to the scientific community 24 hours after the actual observation(s). With this work, we aim to drastically reduce this waiting period to allow near real-time characterizations of the photospheric vector magnetic field. Here, we here detail the inversion method we have pioneered, present preliminary results on the derived full-disc magnetic field as well as timing/speedup considerations, and finally offer some outlooks on the future direction of this work.

  19. Utjecaj različitih vrsta soli na proizvodni kalo i fizikalno-kemijska svojstva Slavonske šunke

    OpenAIRE

    Kovačević, Dragan; Mastanjević, Krešimir; Kušurin, Iva

    2017-01-01

    Cilj rada je bio istražiti utjecaj različitih vrsta soli (sitne kamene i krupne morske) na proizvodni kalo i fizikalno-kemijska svojstva (masene udjele vode, masti, proteina, soli te pH vrijednost i aw) Slavonske šunke tijekom 238 dana proizvodnje. Tijekom tradicionalnog postupka proizvodnje, kontinuirano je svakih 7 dana praćen proizvodni kalo, dok su fizikalno-kemijska svojstva određena na početku proizvodnje (1. dan), na kraju procesa soljenja (28. dan) te na kraju proizvodnje (238. dan). ...

  20. Researcher Profile: An Interview with Virginia Solis Zuiker, Ph.D.

    Directory of Open Access Journals (Sweden)

    Virginia Solis Zuiker

    2015-12-01

    Full Text Available Virginia Solis Zuiker is an Associate Professor in the Department of Family Social Science at the University of Minnesota. She teaches courses on personal and family finance, family financial counseling, family resource management, economic perspectives of families, and family decision-making. Her scholarly research focus is in the area of economic well-being of families with particular interest in self-employment and family-owned businesses. Her research focuses on the Hispanic family life and she is the author of “Hispanic Self-Employment in the Southwest: Rising Above the Threshold of Poverty,” (Garland Publishing, 1997. She received her B.S. from the University of North Texas, an M.S. from Texas Tech University, and a Ph.D. from The Ohio State University. She served three years on the Board of Directors for the Association of Financial Counseling and Planning Education.

  1. Automatic Active-Region Identification and Azimuth Disambiguation of the SOLIS/VSM Full-Disk Vector Magnetograms

    Science.gov (United States)

    Georgoulis, M. K.; Raouafi, N.-E.; Henney, C. J.

    The Vector Spectromagnetograph (VSM) of the NSO's Synoptic Optical Long-Term Investigations of the Sun (SOLIS) facility is now operational and obtains the first-ever vector magnetic field measurements of the entire visible solar hemisphere. To fully exploit the unprecedented SOLIS/VSM data, however, one must first address two critical problems: first, the study of solar active regions requires an automatic, physically intuitive, technique for active-region identification in the solar disk. Second, use of active-region vector magnetograms requires removal of the azimuthal 180° ambiguity in the orientation of the transverse magnetic field component. Here we report on an effort to address both problems simultaneously and efficiently. To identify solar active regions we apply an algorithm designed to locate complex, flux-balanced, magnetic structures with a dominant East--West orientation on the disk. Each of the disk portions corresponding to active regions is thereafter extracted and subjected to the Nonpotential Magnetic Field Calculation (NPFC) method that provides a physically-intuitive solution of the 180° ambiguity. Both algorithms have been integrated into the VSM data pipeline and operate in real time, without human intervention. We conclude that this combined approach can contribute meaningfully to our emerging capability for full-disk vector magnetography as pioneered by SOLIS today and will be carried out by ground-based and space-borne magnetographs in the future.

  2. Cellulomonas soli sp. nov. and Cellulomonas oligotrophica sp. nov., isolated from soil.

    Science.gov (United States)

    Hatayama, Kouta; Esaki, Kouji; Ide, Teruhiko

    2013-01-01

    Two novel bacterial strains, designated Kc1(T) and Kc5(T), were isolated from soil in Japan. Cells of the novel strains were Gram-reaction-positive, aerobic or facultatively anaerobic, motile rods. Phylogenetic analyses based on 16S rRNA gene sequences indicated that both strains belonged to the genus Cellulomonas. The 16S rRNA gene sequences of strains Kc1(T) and Kc5(T) showed closest similarity to that of Cellulomonas terrae DB5(T) (98.1 % and 98.4 % similarity, respectively), and the 16S rRNA gene similarity between the two novel strains was 97.8 %. In both strains, the major menaquinone was MK-9(H(4)), the predominant polar lipids were diphosphatidylglycerol and phosphatidylinositol mannosides, and the peptidoglycan contained ornithine and glutamic acid. Cell-wall sugars were identified as rhamnose, galactose and mannose in strain Kc1(T) and rhamnose and glucose in strain Kc5(T). The DNA G+C contents of strains Kc1(T) and Kc5(T) were 73.6 mol% and 75.8 mol%, respectively. Based on the chemotaxonomic and physiological data and the results of DNA-DNA hybridizations, the two strains represent two novel species within the genus Cellulomonas, for which the names Cellulomonas soli sp. nov. (type strain Kc1(T) =DSM 24484(T) =JCM 17535(T)) and Cellulomonas oligotrophica sp. nov. (type strain Kc5(T) =DSM 24482(T) =JCM 17534(T)) are proposed.

  3. Jeotgalibacillus soli sp. nov., a Gram-stain-positive bacterium isolated from soil.

    Science.gov (United States)

    Cunha, Sofia; Tiago, Igor; Paiva, Gabriel; Nobre, Fernanda; da Costa, Milton S; Veríssimo, António

    2012-03-01

    A Gram-staining-positive, motile, rod-shaped, spore-forming bacterium, designated P9(T), was isolated from soil in Portugal. This organism was aerobic and catalase- and oxidase-positive. It had an optimum growth temperature of about 35 °C and an optimum growth pH of about 8.0-8.5, and grew in medium with 0-9% (w/v) NaCl. The cell-wall peptidoglycan was of the A1α type, with L-lysine as the diagnostic diamino acid. The major respiratory quinone was menaquinone 7 (MK-7) and the major fatty acids were anteiso-C(15:0) (45.4%), iso-C(15:0) (22.0%) and anteiso-C(17:0) (11.2%). The genomic DNA G+C content was about 39.4 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain P9(T) was most closely related to Jeotgalibacillus campisalis DSM 18983(T) (96.8%) and Jeotgalibacillus marinus DSM 1297(T) (96.5%). These two recognized species formed a coherent cluster with strain P9(T) that was supported by a bootstrap value of 99%. On the basis of the phylogenetic analysis and physiological and biochemical characteristics, strain P9(T) (=DSM 23228(T)=LMG 25523(T)) represents a novel species of the genus Jeotgalibacillus, for which the name Jeotgalibacillus soli sp. nov. is proposed.

  4. Rhodococcus soli sp. nov., an actinobacterium isolated from soil using a resuscitative technique.

    Science.gov (United States)

    Li, Shan-Hui; Yu, Xiao-Yun; Park, Dong-Jin; Hozzein, Wael N; Kim, Chang-Jin; Shu, Wen-Sheng; Wadaan, Mohammed A M; Ding, Lin-Xian; Li, Wen-Jun

    2015-02-01

    A Gram-positive, aerobic, non-motile, non-spore forming strain, designated DSD51W(T), was isolated using a resuscitative technique from a soil sample collected from Kyoto park, Japan, and characterized by using a polyphasic approach. The morphological and chemotaxonomic properties of the isolate were typical of those of members of the genus Rhodococcus. Strain DSD51W(T) was found to form a coherent cluster with Rhodococcus hoagii ATCC 7005(T), Rhodococcus equi NBRC 101255(T), Rhodococcus defluvii Call(T) and Rhodococcus kunmingensis YIM 45607(T) as its closest phylogenetic neighbours in 16S rRNA gene sequence analysis. However, the DNA-DNA hybridization values with the above strains were 58.2 ± 2.2, 58.4 ± 1.9, 45.1 ± 1.4 and 40.3 ± 4.7 %, respectively. In combination with differences in physiological and biochemical properties, strain DSD51W(T) can be concluded to represent a novel species of the genus Rhodococcus, for which the name Rhodococcus soli sp. nov. is proposed, with the type strain DSD51W(T) (=KCTC 29259(T) = JCM 19627(T) = DSM 46662(T) = KACC 17838(T)).

  5. Comparison of three targeted enrichment strategies on the SOLiD sequencing platform.

    Directory of Open Access Journals (Sweden)

    Dale J Hedges

    2011-04-01

    Full Text Available Despite the ever-increasing throughput and steadily decreasing cost of next generation sequencing (NGS, whole genome sequencing of humans is still not a viable option for the majority of genetics laboratories. This is particularly true in the case of complex disease studies, where large sample sets are often required to achieve adequate statistical power. To fully leverage the potential of NGS technology on large sample sets, several methods have been developed to selectively enrich for regions of interest. Enrichment reduces both monetary and computational costs compared to whole genome sequencing, while allowing researchers to take advantage of NGS throughput. Several targeted enrichment approaches are currently available, including molecular inversion probe ligation sequencing (MIPS, oligonucleotide hybridization based approaches, and PCR-based strategies. To assess how these methods performed when used in conjunction with the ABI SOLID3+, we investigated three enrichment techniques: Nimblegen oligonucleotide hybridization array-based capture; Agilent SureSelect oligonucleotide hybridization solution-based capture; and Raindance Technologies' multiplexed PCR-based approach. Target regions were selected from exons and evolutionarily conserved areas throughout the human genome. Probe and primer pair design was carried out for all three methods using their respective informatics pipelines. In all, approximately 0.8 Mb of target space was identical for all 3 methods. SOLiD sequencing results were analyzed for several metrics, including consistency of coverage depth across samples, on-target versus off-target efficiency, allelic bias, and genotype concordance with array-based genotyping data. Agilent SureSelect exhibited superior on-target efficiency and correlation of read depths across samples. Nimblegen performance was similar at read depths at 20× and below. Both Raindance and Nimblegen SeqCap exhibited tighter distributions of read depth

  6. Azospirillum soli sp. nov., a nitrogen-fixing species isolated from agricultural soil.

    Science.gov (United States)

    Lin, Shih-Yao; Hameed, Asif; Liu, You-Cheng; Hsu, Yi-Han; Lai, Wei-An; Shen, Fo-Ting; Young, Chiu-Chung

    2015-12-01

    An aerobic, Gram-stain-negative, rod or spiral-shaped diazotrophic bacterium (designated strain CC-LY788T), was isolated from agricultural soil in Taiwan. Strain CC-LY788T was able to grow at 25-40 °C, pH 6.0-8.0 and tolerated NaCl to 2.0% (w/v). Positive for nitrogen fixation with the activity recorded as 6.5 nmol ethylene h(-1). Strain CC-LY788T showed highest 16S rRNA gene sequence similarity to Azospirillum picis DSM 19922T (97.2%) and Azospirillum rugosum DSM 19657T (97.1%) and lower sequence similarities (Azospirillum. According to the DNA-DNA hybridization, the relatedness values of strain CC-LY788T with A. picis DSM 19922T and A. rugosum DSM 19657T were 51.1±5.5% and 46.8±2.1%, respectively. Strain CC-LY788T was positive for the rapid identification of the genus-specific primer set. The respiratory quinone system was ubiquinone (Q-10) and the DNAG+C content was 69.8 mol%. The major fatty acids found in strain CC-LY788T were C16 : 0, C18 : 1 2-OH, C14 : 0 3-OH/C16 : 1 iso I (summed feature 2), C16 : 1ω7c/C16 : 1ω6c (summed feature 3), C18 : 0 ante/C18 : 2ω6,9c (summed feature 5) and C18 : 1ω7c/C18 : 1ω6c (summed feature 8). Based on the phylogenetic, phenotypic and chemotaxonomic features, strain CC-LY788T represents a novel species of the genus Azospirillum, for which the name Azospirillum soli sp. nov. is proposed. The type strain is CC-LY788T (=BCRC 80569T=JCM 18820T).

  7. Decoding the Hermetic Discourse in Salomon Trismosin's Splendor Solis - A Semiotic Study of Three Ways of Reading

    Directory of Open Access Journals (Sweden)

    J. Peter Södergård

    1996-01-01

    Full Text Available Alchemy and the Hermetic Art are terms that denote a most interesting transitional space, circumscribing an opaque region of human cultural history, shared between matter and psyche, between phantasmagoric reveries and practical experiments, between sincere natural theology and conscious fraud. This is an area of human experience that has been notoriously difficult to define and understand, and which has triggered off contradictory interpretations that are, in their own, of semiotic interest. It has been said that a text — in our case Splendor Solis, and the Hermetic–alchemical texts at large — is a picnic, a Dutch party, in which the author provides the words and the reader, especially a reader with too much or too little erudition, comes up with the meaning of the words. In this article, the author tries to give an overview of the general interpretations of alchemy that have been put forward, and apply Umberto Eco's intentional approach to these interpretations, viz. consider them as various sorts of intentions. The author uses a pseudonymous alchemical tractate from the sixteenth century, Salomon Trismosin's treatise Splendor Solis as an opportunity to picture and evaluate the three main decodings of alchemy that have been attempted; a chemical, a religious—soteriological and a psychological. The author also explores the intertextual web in the Hermetic discourse, and see if its mapping can generate usable knowledge about what has, since the Middle Ages, been called alchemy: a term acknowledging the taking up of a science or art which had been cultivated by Muslim and Nestorian scholars, but with its fountain head in Late Antiquity.

  8. Two new species of dicyemid mesozoans (Dicyemida: Dicyemidae) from Octopus maya Voss & Solis-Ramirez (Octopodidae) off Yucatan, Mexico.

    Science.gov (United States)

    Castellanos-Martinez, Sheila; Aguirre-Macedo, M Leopoldina; Furuya, Hidetaka

    2016-07-01

    Two new dicyemid species are described from the endemic cephalopod Octopus maya Voss & Solis-Ramirez collected off Yucatan, Mexico. The renal sacs of 40 juvenile and adult octopuses from four localities were examined. Dicyema hochbergi n. sp. is a medium-sized species that reaches 2,245 µm in length. The vermiform stages consist of 18-24 peripheral cells, a conical calotte and the extension of the axial cell between the base and middle of the metapolar cells. Infusoriform embryos consist of 39 cells with urn cell containing one germinal cell, two nuclei and solid refringent bodies. Dicyema mexcayae n. sp. is a relatively small species that reaches 1,114 µm in length. The vermiform stages are constituted by 14-16 peripheral cells, an elongate calotte and the axial cell extending forward to the middle of the metapolar cells. The infusoriform embryos consist of 37 cells, two solid refringent bodies and urn cells with two nuclei each. The present study represents the first description of a dicyemid species from O. maya and increases the number of described species from Mexican waters to 11.

  9. Categorical Analysis of Human T Cell Heterogeneity with One-Dimensional Soli-Expression by Nonlinear Stochastic Embedding.

    Science.gov (United States)

    Cheng, Yang; Wong, Michael T; van der Maaten, Laurens; Newell, Evan W

    2016-01-15

    Rapid progress in single-cell analysis methods allow for exploration of cellular diversity at unprecedented depth and throughput. Visualizing and understanding these large, high-dimensional datasets poses a major analytical challenge. Mass cytometry allows for simultaneous measurement of >40 different proteins, permitting in-depth analysis of multiple aspects of cellular diversity. In this article, we present one-dimensional soli-expression by nonlinear stochastic embedding (One-SENSE), a dimensionality reduction method based on the t-distributed stochastic neighbor embedding (t-SNE) algorithm, for categorical analysis of mass cytometry data. With One-SENSE, measured parameters are grouped into predefined categories, and cells are projected onto a space composed of one dimension for each category. In contrast with higher-dimensional t-SNE, each dimension (plot axis) in One-SENSE has biological meaning that can be easily annotated with binned heat plots. We applied One-SENSE to probe relationships between categories of human T cell phenotypes and observed previously unappreciated cellular populations within an orchestrated view of immune cell diversity. The presentation of high-dimensional cytometric data using One-SENSE showed a significant improvement in distinguished T cell diversity compared with the original t-SNE algorithm and could be useful for any high-dimensional dataset. Copyright © 2016 by The American Association of Immunologists, Inc.

  10. Seeds of Life in Space (SOLIS). II. Formamide in protostellar shocks: Evidence for gas-phase formation

    Science.gov (United States)

    Codella, C.; Ceccarelli, C.; Caselli, P.; Balucani, N.; Barone, V.; Fontani, F.; Lefloch, B.; Podio, L.; Viti, S.; Feng, S.; Bachiller, R.; Bianchi, E.; Dulieu, F.; Jiménez-Serra, I.; Holdship, J.; Neri, R.; Pineda, J. E.; Pon, A.; Sims, I.; Spezzano, S.; Vasyunin, A. I.; Alves, F.; Bizzocchi, L.; Bottinelli, S.; Caux, E.; Chacón-Tanarro, A.; Choudhury, R.; Coutens, A.; Favre, C.; Hily-Blant, P.; Kahane, C.; Jaber Al-Edhari, A.; Laas, J.; López-Sepulcre, A.; Ospina, J.; Oya, Y.; Punanova, A.; Puzzarini, C.; Quenard, D.; Rimola, A.; Sakai, N.; Skouteris, D.; Taquet, V.; Testi, L.; Theulé, P.; Ugliengo, P.; Vastel, C.; Vazart, F.; Wiesenfeld, L.; Yamamoto, S.

    2017-09-01

    Context. Modern versions of the Miller-Urey experiment claim that formamide (NH2CHO) could be the starting point for the formation of metabolic and genetic macromolecules. Intriguingly, formamide is indeed observed in regions forming solar-type stars and in external galaxies. Aims: How NH2CHO is formed has been a puzzle for decades: our goal is to contribute to the hotly debated question of whether formamide is mostly formed via gas-phase or grain surface chemistry. Methods: We used the NOrthern Extended Millimeter Array (NOEMA) interferometer to image NH2CHO towards the L1157-B1 blue-shifted shock, a well-known interstellar laboratory, to study how the components of dust mantles and cores released into the gas phase triggers the formation of formamide. Results: We report the first spatially resolved image (size 9″, 2300 AU) of formamide emission in a shocked region around a Sun-like protostar: the line profiles are blueshifted and have a FWHM ≃ 5 km s-1. A column density of NNH2CHO = 8 × 1012 cm-1 and an abundance, with respect to H-nuclei, of 4 × 10-9 are derived. We show a spatial segregation of formamide with respect to other organic species. Our observations, coupled with a chemical modelling analysis, indicate that the formamide observed in L1157-B1 is formed by a gas-phase chemical process and not on grain surfaces as previously suggested. Conclusions: The Seeds of Life in Space (SOLIS) interferometric observations of formamide provide direct evidence that this potentially crucial brick of life is efficiently formed in the gas phase around Sun-like protostars. The reduced datacube is only available at the CDS via anonymous ftp to http://cdsarc.u-strasbg.fr (http://130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/605/L3

  11. Seeds of Life in Space (SOLIS). III. Zooming Into the Methanol Peak of the Prestellar Core L1544

    Science.gov (United States)

    Punanova, Anna; Caselli, Paola; Feng, Siyi; Chacón-Tanarro, Ana; Ceccarelli, Cecilia; Neri, Roberto; Fontani, Francesco; Jiménez-Serra, Izaskun; Vastel, Charlotte; Bizzocchi, Luca; Pon, Andy; Vasyunin, Anton I.; Spezzano, Silvia; Hily-Blant, Pierre; Testi, Leonardo; Viti, Serena; Yamamoto, Satoshi; Alves, Felipe; Bachiller, Rafael; Balucani, Nadia; Bianchi, Eleonora; Bottinelli, Sandrine; Caux, Emmanuel; Choudhury, Rumpa; Codella, Claudio; Dulieu, François; Favre, Cécile; Holdship, Jonathan; Jaber Al-Edhari, Ali; Kahane, Claudine; Laas, Jake; LeFloch, Bertrand; López-Sepulcre, Ana; Ospina-Zamudio, Juan; Oya, Yoko; Pineda, Jaime E.; Podio, Linda; Quenard, Davide; Rimola, Albert; Sakai, Nami; Sims, Ian R.; Taquet, Vianney; Theulé, Patrice; Ugliengo, Piero

    2018-03-01

    Toward the prestellar core L1544, the methanol (CH3OH) emission forms an asymmetric ring around the core center, where CH3OH is mostly in solid form, with a clear peak at 4000 au to the northeast of the dust continuum peak. As part of the NOEMA Large Project SOLIS (Seeds of Life in Space), the CH3OH peak has been spatially resolved to study its kinematics and physical structure and to investigate the cause behind the local enhancement. We find that methanol emission is distributed in a ridge parallel to the main axis of the dense core. The centroid velocity increases by about 0.2 km s‑1 and the velocity dispersion increases from subsonic to transonic toward the central zone of the core, where the velocity field also shows complex structure. This could be an indication of gentle accretion of material onto the core or the interaction of two filaments, producing a slow shock. We measure the rotational temperature and show that methanol is in local thermodynamic equilibrium (LTE) only close to the dust peak, where it is significantly depleted. The CH3OH column density, N tot(CH3OH), profile has been derived with non-LTE radiative transfer modeling and compared with chemical models of a static core. The measured N tot(CH3OH) profile is consistent with model predictions, but the total column densities are one order of magnitude lower than those predicted by models, suggesting that the efficiency of reactive desorption or atomic hydrogen tunneling adopted in the model may be overestimated; or that an evolutionary model is needed to better reproduce methanol abundance. This work is based on observations carried out under project number L15AA with the IRAM NOEMA Interferometer and on observations carried out with the IRAM 30 m telescope. IRAM is supported by INSU/CNRS (France), MPG (Germany), and IGN (Spain).

  12. Seeds Of Life In Space (SOLIS): The Organic Composition Diversity at 300-1000 au Scale in Solar-type Star-forming Regions

    Science.gov (United States)

    Ceccarelli, C.; Caselli, P.; Fontani, F.; Neri, R.; López-Sepulcre, A.; Codella, C.; Feng, S.; Jiménez-Serra, I.; Lefloch, B.; Pineda, J. E.; Vastel, C.; Alves, F.; Bachiller, R.; Balucani, N.; Bianchi, E.; Bizzocchi, L.; Bottinelli, S.; Caux, E.; Chacón-Tanarro, A.; Choudhury, R.; Coutens, A.; Dulieu, F.; Favre, C.; Hily-Blant, P.; Holdship, J.; Kahane, C.; Jaber Al-Edhari, A.; Laas, J.; Ospina, J.; Oya, Y.; Podio, L.; Pon, A.; Punanova, A.; Quenard, D.; Rimola, A.; Sakai, N.; Sims, I. R.; Spezzano, S.; Taquet, V.; Testi, L.; Theulé, P.; Ugliengo, P.; Vasyunin, A. I.; Viti, S.; Wiesenfeld, L.; Yamamoto, S.

    2017-12-01

    Complex organic molecules have been observed for decades in the interstellar medium. Some of them might be considered as small bricks of the macromolecules at the base of terrestrial life. It is hence particularly important to understand organic chemistry in Solar-like star-forming regions. In this article, we present a new observational project: Seeds Of Life In Space (SOLIS). This is a Large Project using the IRAM-NOEMA interferometer, and its scope is to image the emission of several crucial organic molecules in a sample of Solar-like star-forming regions in different evolutionary stages and environments. Here we report the first SOLIS results, obtained from analyzing the spectra of different regions of the Class 0 source NGC 1333-IRAS4A, the protocluster OMC-2 FIR4, and the shock site L1157-B1. The different regions were identified based on the images of formamide (NH2CHO) and cyanodiacetylene (HC5N) lines. We discuss the observed large diversity in the molecular and organic content, both on large (3000-10,000 au) and relatively small (300-1000 au) scales. Finally, we derive upper limits to the methoxy fractional abundance in the three observed regions of the same order of magnitude of that measured in a few cold prestellar objects, namely ˜ {10}-12-10-11 with respect to H2 molecules. Based on observations carried out under project number L15AA with the IRAM-NOEMA interferometer. IRAM is supported by INSU/CNRS (France), MPG (Germany), and IGN (Spain).

  13. SOLiD™ sequencing of genomes of clinical isolates of Leishmania donovani from India confirm leptomonas co-infection and raise some key questions.

    Directory of Open Access Journals (Sweden)

    Neeloo Singh

    Full Text Available BACKGROUND: Known as 'neglected disease' because relatively little effort has been applied to finding cures, leishmaniasis kills more than 150,000 people every year and debilitates millions more. Visceral leishmaniasis (VL, also called Kala Azar (KA or black fever in India, claims around 20,000 lives every year. Whole genome analysis presents an excellent means to identify new targets for drugs, vaccine and diagnostics development, and also provide an avenue into the biological basis of parasite virulence in the L. donovani complex prevalent in India. METHODOLOGY/PRINCIPAL FINDINGS: In our presently described study, the next generation SOLiD™ platform was successfully utilized for the first time to carry out whole genome sequencing of L. donovani clinical isolates from India. We report the exceptional occurrence of insect trypanosomatids in clinical cases of visceral leishmaniasis (Kala Azar patients in India. We confirm with whole genome sequencing analysis data that isolates which were sequenced from Kala Azar (visceral leishmaniasis cases were genetically related to Leptomonas. The co-infection in splenic aspirate of these patients with a species of Leptomonas and how likely is it that the infection might be pathogenic, are key questions which need to be investigated. We discuss our results in the context of some important probable hypothesis in this article. CONCLUSIONS/SIGNIFICANCE: Our intriguing results of unusual cases of Kala Azar found to be most similar to Leptomonas species put forth important clinical implications for the treatment of Kala Azar in India. Leptomonas have been shown to be highly susceptible to several standard leishmaniacides in vitro. There is very little divergence among these two species viz. Leishmania sp. and L. seymouri, in terms of genomic sequence and organization. A more extensive perception of the phenomenon of co-infection needs to be addressed from molecular pathogenesis and eco

  14. High prevalence of blaOXA-23 in Acinetobacter spp. and detection of blaNDM-1 in A. soli in Cuba: report from National Surveillance Program (2010–2012

    Directory of Open Access Journals (Sweden)

    D. Quiñones

    2015-09-01

    Full Text Available As a first national surveillance of Acinetobacter in Cuba, a total of 500 Acinetobacter spp. isolates recovered from 30 hospitals between 2010 and 2012 were studied. Acinetobacter baumannii–calcoaceticus complex accounted for 96.4% of all the Acinetobacter isolates, while other species were detected at low frequency (A. junii 1.6%, A. lwoffii 1%, A. haemolyticus 0.8%, A. soli 0.2%. Resistance rates of isolates were 34–61% to third-generation cephalosporins, 49–50% to β-lactams/inhibitor combinations, 42–47% to aminoglycosides, 42–44% to carbapenems and 55% to ciprofloxacin. However, resistance rates to colistin, doxycycline, tetracycline and rifampin were less than 5%. Among carbapenem-resistant isolates, 75% harboured different blaOXA genes (OXA-23, 73%; OXA-24, 18%; OXA-58, 3%. The blaNDM-1 gene was identified in an A. soli strain, of which the species was confirmed by sequence analysis of 16S rRNA gene, rpoB, rpoB–rpoC and rpoL–rpoB intergenic spacer regions and gyrB. The sequences of blaNDM-1 and its surrounding genes were identical to those reported for plasmids of A. baumannii and A. lwoffi strains. This is the first report of blaNDM-1 in A. soli, together with a high prevalence of OXA-23 carbapenemase for carbapenem resistance in Acinetobacter spp. in Cuba.

  15. Seeds of Life in Space (SOLIS). I. Carbon-chain growth in the Solar-type protocluster OMC2-FIR4

    Science.gov (United States)

    Fontani, F.; Ceccarelli, C.; Favre, C.; Caselli, P.; Neri, R.; Sims, I. R.; Kahane, C.; Alves, F. O.; Balucani, N.; Bianchi, E.; Caux, E.; Jaber Al-Edhari, A.; Lopez-Sepulcre, A.; Pineda, J. E.; Bachiller, R.; Bizzocchi, L.; Bottinelli, S.; Chacon-Tanarro, A.; Choudhury, R.; Codella, C.; Coutens, A.; Dulieu, F.; Feng, S.; Rimola, A.; Hily-Blant, P.; Holdship, J.; Jimenez-Serra, I.; Laas, J.; Lefloch, B.; Oya, Y.; Podio, L.; Pon, A.; Punanova, A.; Quenard, D.; Sakai, N.; Spezzano, S.; Taquet, V.; Testi, L.; Theulé, P.; Ugliengo, P.; Vastel, C.; Vasyunin, A. I.; Viti, S.; Yamamoto, S.; Wiesenfeld, L.

    2017-09-01

    The interstellar delivery of carbon atoms locked into molecules might be one of the key ingredients for the emergence of life. Cyanopolyynes are carbon chains delimited at their two extremities by an atom ofhydrogen and a cyano group, meaning that they could be excellent reservoirs of carbon. The simplest member, HC3N, is ubiquitous in the galactic interstellar medium and found also in external galaxies. Thus, understanding the growth of cyanopolyynes in regions forming stars similar to our Sun, and what affects them, is particularly relevant. In the framework of the IRAM/NOEMA Large Program SOLIS (Seeds Of Life In Space), we have obtained a map of two cyanopolyynes, HC3N and HC5N, in the protocluster OMC-2 FIR4. Because our Sun is thought to be born in a rich cluster, OMC-2 FIR4 is one of the closest and best known representatives of the environment in which the Sun may have been born. We find a HC3N/HC5N abundance ratio across the source in the range 1-30, with the smallest values (≤10) in FIR5 and in the eastern region of FIR4. The ratios ≤10 can be reproduced by chemical models only if: (1) the cosmic-ray ionisation rate ζ is 4 × 10-14 s-1; (2) the gaseous elemental ratio C/O is close to unity; and (3) oxygen and carbon are largely depleted. The large ζ is comparable to that measured in FIR4 by previous works and was interpreted as due to a flux of energetic (≥10 MeV) particles from embedded sources. We suggest that these sources could lie east of FIR4 and FIR5. A temperature gradient across FIR4, with T decreasing from east to west by about 10 K, could also explain the observed change in the HC3N/HC5N line ratio, without the need of a cosmic ray ionisation rate gradient. However, even in this case, a high constant cosmic-ray ionisation rate (of the order of 10-14 s-1) is necessary to reproduce the observations. Based on observations carried out under project number L15AA with the IRAM NOEMA Interferometer. IRAM is supported by INSU/CNRS (France), MPG

  16. Phycicoccus soli sp. nov., isolated from soil.

    Science.gov (United States)

    Singh, Hina; Won, KyungHwa; Ngo, Hien T T; Du, Juan; Kook, MooChang; Yi, Tae-Hoo

    2015-08-01

    A Gram-stain-positive, non-motile, coccus-shaped bacterium, strain THG-a14T, was isolated from soil of Gyeyang mountain in Incheon, Republic of Korea. The isolate grew optimally at 28 °C, at pH 6.5-7.5 and with 0-3 % (w/v) NaCl. Based on 16S rRNA gene sequence comparisons, strain THG-a14T was closely related to Phycicoccus aerophilus 5516T-20T (97.7 %), P. ginsenosidimutans BXN5-13T (97.6 %), 'P. ochangensis' L1b-b9 (97.4 %) and P. bigeumensis MSL-03 (97.2 %). The DNA G+C content of strain THG-a14T was 71.6 mol%. In DNA-DNA hybridization, the DNA-DNA relatedness between strain THG-a14T and its closest phylogenetically neighbours was below 50.0 %. Strain THG-a14T was characterized chemotaxonomically as having meso-diaminopimelic acid in the cell-wall peptidoglycan. Strain THG-a14T contained glucose and ribose as whole-cell-wall sugars and menaquinone MK-8(H4) as the major isoprenoid quinone. Polar lipids in strain THG-a14T consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphoaminoglycolipids, unidentified phospholipids and unidentified lipids. The major fatty acids were iso-C16:0, iso-C15:0 and C17:1ω8c. On the basis of our polyphasic taxonomy study, strain THG-a14T represents a novel species within the genus Phycicoccus, for which the name Phycicoccussoli sp. nov. is proposed. The type strain is THG-a14T ( = KACC 17892T = JCM 19837T).

  17. SOLIS vector spectromagnetograph: status and science

    NARCIS (Netherlands)

    Henney, C.J.; Keller, C.U.; Harvey, J.W.; Georgoulis, M.K.; Hadder, N.L.; Norton, A.A.; Raouafi, N.-E.; Toussaint, R.M.

    2007-01-01

    The Vector Spectromagnetograph (VSM) instrument has recorded photospheric and chromospheric magnetograms daily since August 2003. Fulldisk photospheric vector magnetograms are observed at least weekly and, since November 2006, area-scans of active regions daily. Quick-look vector magnetic images,

  18. SOLIS Vector Spectromagnetograph: Status and Science

    Science.gov (United States)

    Henney, C. J.; Keller, C. U.; Harvey, J. W.; Georgoulis, M. K.; Hadder, N. L.; Norton, A. A.; Raouafi, N.-E.; Toussaint, R. M.

    2009-06-01

    The Vector Spectromagnetograph (VSM) instrument has recorded photospheric and chromospheric magnetograms daily since August 2003. Full-disk photospheric vector magnetograms are observed at least weekly and, since November 2006, area-scans of active regions daily. Quick-look vector magnetic images, plus X3D and FITS formated files, are now publicly available daily. In the near future, Milne-Eddington inversion parameter data will also be available and a typical observing day will include three full-disk photospheric vector magnetograms. Besides full-disk observations, the VSM is capable of high temporal cadence area-scans of both the photosphere and chromosphere. Carrington rotation and daily synoptic maps are also available from the photospheric magnetograms and coronal hole estimate images.

  19. Soli~ Waste Management in Ghana: Willingness-to-Pay for ...

    African Journals Online (AJOL)

    environmental problems in most cities in the developing world. especially in the area of solid waste ... transportation. with little focus on its treatment and proper disposal (World. Bank website. undated). In spite of .... environmental degradation and public health as some residents, including children, used to dump waste.

  20. Simplicispira soli sp. nov., a betaproteobacterium isolated from stream bank soil.

    Science.gov (United States)

    Dahal, Ram Hari; Kim, Jaisoo

    2018-02-05

    Two strains of soil bacteria, designated CA-16 T and CA-161, were isolated from a sample of stream bank soil near Kyonggi University. Cells were strictly aerobic, Gram-stain-negative, catalase-negative, oxidase-positive, motile, non-spore-forming and rod-shaped. Colonies on tryptone soya agar were brownish cream in colour. Tyrosine, Tween 60 and Tween 40 were hydrolysed. The indole test was positive. Malic acid, lactic acid and valeric acid were assimilated. Phylogenetic analysis based on their 16S rRNA gene sequences revealed that strains CA-16 T and CA-161 formed a lineage within the family Comamonadaceae of the class Betaproteobacteria that were distinct from various species of the genus Simplicispira. Strain CA-16 T was most closely related to Simplicispira metamorpha DSM 1837 T (97.86 % sequence similarity), Simplicispira limi EMB325 T (97.72 %), Simplicispira psychrophila DSM 11588 T (96.83 %) and Simplicispira piscis RSG39 T (96.71 %). Both strains contained Q-8 as the major isoprenoid quinone. The major polar lipids of the strains were phosphatidylglycerol, phosphatidylethanolamine and diphosphatidylglycerol. The major cellular fatty acids were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), C18 : 1ω7c-11methyl, C16 : 0, summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C12 : 0. The DNA G+C contents of the strains were 63.9-64.4 mol%. DNA-DNA hybridization similarities between strain CA-16 T and other closest members of the genus Simplicispira ranged from 16 % to 24 %. On the basis of phenotypic, genotypic, chemotaxonomic and phylogenetic analyses, strains CA-16 T and CA-161 represent a single novel species of the genus Simplicispira, for which the name Simplicispirasoli sp. nov. is proposed. The type strain is CA-16 T (=KEMB 9005-529 T =KACC 19107 T =NBRC 112689 T ).

  1. Ferrovibrio soli sp. nov., a novel cellulolytic bacterium isolated from stream bank soil.

    Science.gov (United States)

    Dahal, Ram Hari; Kim, Jaisoo

    2018-01-01

    Two isolates of bacterial strains A15 T and A17 were isolated from stream bank soil in Kyonggi University. Cells were aerobic, Gram-stain-negative, oxidase- and catalase-positive, motile, non-spore-forming, rod-shaped, opaque, and cream coloured. Both strains hydrolysed CM-cellulose. Strains were able to grow at 20-42 °C, pH 5.5-10.0 and at 1.5 % NaCl concentration (w/v). Indole test was positive. Analyses of phylogenetic trees based on its 16S rRNA gene sequences indicated that strain A15 T formed a lineage within the family Rhodospirillaceae of the phylum Proteobacteria which was distinct from Ferrovibrio denitrificans S3 T (98.4 % sequence similarity) and Ferrovibrio xuzhouensis LM-6 T (97.4 %). The sole detected respiratory quinone was Q-10. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and an unidentified aminolipid. The major cellular fatty acids were C19 : 0 cycloω8c, C16 : 0, summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), C18 : 0cyclo and C12 : 0. The DNA G+C contents of strains A15 T and A17 were 63.4 and 62.9 mol%, respectively. DNA-DNA relatedness between strain A15 T and other two members of the genus Ferrovibrioranged from 25 to 37 %. The polyphasic characterization revealed strains A15 T and A17 represent a novel species in the genus Ferrovibrio, for which the name Ferrovibriosoli sp. nov. is proposed. The type strain is A15 T (=KEMB 9005-522 T =KACC 19102 T =NBRC 112682 T ).

  2. «Soli Hispani»? Innocent III and Las Navas de Tolosa

    OpenAIRE

    Damián J. Smith

    2018-01-01

    Then study here exposed tries to understand the pope of Innocent III in the battle of Las Navas de Tolosa and it influence in Spain through the notins of crusade and Reconquista. The esential elements were: the reform of the Church, the establishmnet of peace and the spiritual propagation of Christendom.

  3. El virrey Solis en las letras colombianas. Bibliografía

    Directory of Open Access Journals (Sweden)

    León Faidherbee Lyday

    1969-03-01

    Full Text Available En la historia de Nueva Granada y de la República de Colombia pocas figuras han llamado tanto la atención al historiador y al literato como José Solís Folch de Cardona, íntimo amigo de Fernando VI de España, Mariscal de Campo de los reales ejércitos, Comendador de la Orden de San Jorge de Montesa, cuarto virrey de Nueva Granada, y más tarde profeso de la orden monástica franciscana en la ciudad de Bogotá.

  4. Biotransformation of Ferulic acid to 4-Vinylguaiacol by Enterobacter soli and E. aerogenes

    Science.gov (United States)

    We investigated the conversion of ferulic acid to 4-vinylguaiacol (4-VG), vanillin, vanillyl alcohol and vanillic acid by five Enterobacter strains. These high-value chemicals are usually synthesized using chemical methods but biological synthesis adds value. Ferulic acid, a relatively inexpensive...

  5. Wind effect as forcing factor controlling distribution and diversity of copepods in a shallow temperate estuary (Solis Grande, Uruguay

    Directory of Open Access Journals (Sweden)

    M. Gómez-Erache

    2000-03-01

    Full Text Available Spatial and temporal variations of planktonic copepods were investigated in relation to environmental conditions in the Solís Grande estuary (34°22´S, 55°33´W, Uruguay. Over a period of fifteen days, samples were taken daily at three stations along the main axis of the estuary, and the species composition and abundance were determined. The Solís Grande is a shallow estuary (2.0 m with no vertical discontinuities. Comparisons of surface versus bottom hydrographic values indicated no vertical stratification of temperature and salinity during the studied period. The species-environmental relationships explain 63.6% of the system´s variability considering the two first axes from Redundance Analysis (RA. Copepods showed strong differences in distribution and abundance between stations and successive days. In the region the winds quickly rotate from sectors S-SE (frontal period to E-NE (post-frontal period. Changes in abundance were significantly related to the inflow and outflow of water produced by the rotation of winds. At smaller space and time scales, the differences highlighted by the RA were the result of wind-forced hydrodynamics after the frontal period. In this situation hydrographic features were dominant (factor one of RA and wind effects were of secondary importance (factor two of RA. Six species were identified and the estuary was clearly dominated by Acartia tonsa. The results showed two negatively correlated groups: one was integrated by Oithona nana, O. simplex, Paracalanus parvus and P. crassirostris while the second group was integrated by A. tonsa and Euterpina acutifrons. Environmental variability may be responsible for the low diversity.

  6. VizieR Online Data Catalog: SOLIS. II. OMC2-FIR4 HC3N and HC5N images (

    Science.gov (United States)

    Fontani, F.; Ceccarelli, C.; Favre, C.; Caselli, P.; Neri, R.; Sims, I. R.; Kahane, C.; Alves, F.; Balucani, N.; Bianchi, E.; Caux, E.; Jaber Al-Edhari, A.; Lopez-Sepulcre, A.; Pineda, J.; Bachiller, R.; Bizzocchi, L.; Bottinelli, S.; Chacon-Tanarro, A.; Choudhury, R.; Codella, C.; Coutens, A.; Dulieu, F.; Feng, S.; Rimola, A.; Hily-Blant, P.; Holdship, J.; Jimenez-Serra, I.; Laas, J.; Lefloch, B.; Oya, Y.; Podio, L.; Pon, A.; Punanova, A.; Quenard, D.; Sakai, N.; Spezzano, S.; Taquet, V.; Testi, L.; Theule, P.; Ugliengo, P.; Vastel, C.

    2017-08-01

    IRAM-NOEMA Interferometer, 3mm receiver, Widex and Narrow-band correlators. Observations with the IRAM NOEMA Interferometer of HC3N (9-8) and HC5N (31-30), at rest frequencies 81.881468GHz and 82.539039GHz , respectively, towards OMC-2 FIR4 have been carried out over 5 days between the 5th and the 19th of August, 2015. The HC3N line was observed in the Widex band correlator, providing a resolution in velocity of ~7.15km/s, while the HC5N line was observed also in the Narrow band correlator with a resolution in velocity of ~0.57km/s. (2 data files).

  7. Methanisation of stackable biomass in discontinuously operated solis fermentation plants; Methanisierung stapelbarer Biomassen in diskontinuierlich betriebenen Feststofffermentationsanlagen

    Energy Technology Data Exchange (ETDEWEB)

    Kusch, S.

    2007-07-01

    In contrary to the municipal waste processing in agricultural areas the biogas production based on solid materials is still in a phase of development. A possible processing approach is the discontinuously operated box fermenter with irrigation. Based on associated features like robustness, flexibility and utilizability in agricultural farms without liquid manure this type of fermenter is quite attractive.The author describes the laboratory and field tests and discusses possible applications, including procedural boundary conditions using different materials and problematic aspects. Possibilities for process optimizations are given.

  8. La ricerca di nuova fisica a LEP mediante lo studio di eventi con soli fotoni nello stato finale

    CERN Document Server

    Verlato, M

    1998-01-01

    A wide search for new physics can be performed at LEP carefully analysing the events having two or more photons in the final state. As a first example, the direct production of a couple of photons, each one having the LEP beam energy, is at tree level a pure QED process, with a negligible electroweak loop contribution. Possible deviation from the QED predictions could arise in the angular differential cross section, as a result of an alteration of the Coulomb potential at distances shorter than about 10^-16 cm. The highest sensitivity to this deviation is at the highest center-of-mass energy (183 GeV) data collected at LEP in 1997. At energies around Z resonance, new physics beyond the Standard Model could be detected observing some Z decays into neutral final states, such as the direct decay into two photon, forbidden from angular momentum conservation and Bose statistic, or very low rate predicted decays into three photons or into a neutral light meson plus a photon, with subsequent meson decay into two or ...

  9. Competing Victimizations or Multidirectional Soli-daties? Politics of Collective Memory and Solidarity in the Post-National Socialist and Post-Colonial Austrian Left

    Directory of Open Access Journals (Sweden)

    Julia Edthofer

    2014-03-01

    Full Text Available In this article I illustrate “competing victimizations” and propose possible “multidirectional solidarities” regarding inner-left debates about the Middle East conflict, anti-Semitism and racism in Viennese left-wing contexts. The illustrated conflict is specific for radical left-wing politics in a post-National Socialist and post-colonial setting. Debates initially revolve around Israel versus Palestine solidarity. In the wake of the Second Intifada and the September 11 attacks they partly divide anti-fascist and anti-racist political stances. While the pro-Israeli camp focuses on the Holocaust, Austrian guilt-deflection and current anti-Semitism, the pro-Palestinian side condemns the Israeli occupation and fights growing anti-Muslim racism. In this context, opposing perspectives on the relation of new anti-Semitism and anti-Muslim racism are articulated. Such competing dynamics and their interrelation with Austrian memory politics and global politics are illustrated.  Subsequently, they are discussed as being related to conflicting memories and interrelated competing victimizations in migrant societies with a National Socialist history, such as in Austria and Germany. Concluding, the concept of “multidirectional solidarity” is proposed as an alternative approach, transcending competitive views on past and current victimizations.

  10. Arboreas voces solis luneque loquentes: la visita de Alejandro Magno a los árboles del sol y de la luna en las crónicas del siglo XII

    Directory of Open Access Journals (Sweden)

    José Miguel De Toro Vidal

    2016-08-01

    Full Text Available El encuentro de Alejandro Magno con los árboles parlantes del Sol y de la Luna en un bosque sagrado de la India, constituye uno de los muchos episodios maravillosos de la leyenda alejandrina difundida en la Edad Media. El objetivo del presente artículo es estudiar el momento en que los cronistas deciden incorporar este pasaje en sus obras e indagar en las causas de esta decisión. Para ello se han revisado las crónicas universales del siglo XII y principios del XIII, cotejándolas con otras obras producidas en la época. Se aprecia que tanto la Historia Scholastica de Pedro Coméstor como los mapamundis contribuyeron a la aceptación del episodio. No obstante, la inclusión del pasaje en las crónicas no obedece tanto a la afirmación del encuentro con los árboles como un hecho cierto de la historia, sino al proyecto histórico-literario previsto por el autor de cada crónica.

  11. Sanguibacter gelidistatuariae sp. nov., a novel psychrotolerant anaerobe from an ice sculpture in Antarctica, and emendation of descriptions of the family Sanguibacteraceae, the genus Sanguibacter and species S. antarcticus, S. inulinus, S. kedieii, S. marinus, S. soli and S. suarezii.

    Science.gov (United States)

    Pikuta, Elena V; Lyu, Zhe; Williams, Melissa D; Patel, Nisha B; Liu, Yuchen; Hoover, Richard B; Busse, Hans-Jürgen; Lawson, Paul A; Whitman, William B

    2017-05-01

    A novel psychrotolerant bacterium, strain ISLP-3T, was isolated from a sample of naturally formed ice sculpture on the shore of Lake Podprudnoye in Antarctica. Cells were motile, stained Gram-positive, non-spore-forming, straight or slightly curved rods with the shape of a baseball bat. The new isolate was facultatively anaerobic and catalase-positive. Growth occurred at 3-35 °C with an optimum at 22-24 °C, 0-2 % (w/v) NaCl with an optimum at 0.3 % and pH 6.2-9.5 with an optimum at pH 7.5. Strain ISLP-3T grew on several carbon sources, with the best growth on cellobiose. The isolate possessed ureolytic activity but growth was inhibited by urea. The strain was sensitive to: ampicillin, gentamycin, kanamycin rifampicin, tetracycline and chloramphenicol. Major fatty acids were: anteiso-C15 : 0, iso-C16 : 0, C16 : 0, C14 : 0 and iso-C15 : 0. The predominant menaquinone was MK-9(H4). The genomic G+C content was 69.5 mol%. The 16S rRNA gene showed 99 % sequence similarity to that of Sanguibacter suarezii ST-26T, but their recA genes shared ≤91 % sequence similarity, suggesting that this new isolate represents a novel species within the genus Sanguibacter. This conclusion was supported by average nucleotide identity, which was ≤91 % to the most closely related strain. The name Sanguibacter gelidistatuariae sp. nov. is proposed for the novel species with the type strain ISLP-3T=ATCC TSD-17T=DSM 100501T=JCM 30887T). The complete genome draft sequence of ISLP-3T was deposited under IMG OID 2657245272. Emendments to the descriptions of related taxa have been made based on experimental data from our comparative analysis.

  12. New Initiatives for Synoptic Observations

    Indian Academy of Sciences (India)

    2016-01-27

    Jan 27, 2016 ... Several new synoptic facilities for long-term studies of the Sun will become operational within the next few years. This paper summarizes information on some of these projects, in particular GONG+, ISOON, GOES/SXI, and SOLIS. SOLIS, the Synoptic Optical Long-Term Investigations of the Sun, is currently ...

  13. Journal of Astrophysics and Astronomy | Indian Academy of Sciences

    Indian Academy of Sciences (India)

    2016-01-27

    Jan 27, 2016 ... Several new synoptic facilities for long-term studies of the Sun will become operational within the next few years. This paper summarizes information on some of these projects, in particular GONG+, ISOON, GOES/SXI, and SOLIS. SOLIS, the Synoptic Optical Long-Term Investigations of the Sun, is currently ...

  14. Integrated coastal management in Uruguay

    International Nuclear Information System (INIS)

    2011-01-01

    Integrated coastal management in Uruguay Carmelo includes the following areas-Nueva Palmira challenges and opportunities for local development in a context of large-scale industrial (Conchillas Uruguay), coastal management and stream Arroyo Solis Solis Chico Grande, Punta Colorada and Punta Negra, Maldonado Province Arroyo Valizas and sustainable tourism.

  15. The stabilization of the rock mass of the wieliczka salt mine through the backfilling of the witos chamber with the use of injection methods / Stabilizacji górotworu kopalni soli "wieliczka" poprzez likwidację komór "witos" z zastosowaniem metod iniekcji

    Science.gov (United States)

    D'Obyrn, Kajetan

    2012-10-01

    The Wieliczka Salt Mine is the most famous and the most visited mining industry monument in the world and it requires modern methods to ensure rock mass stability and tourists' security. Both for conservation and tourism organization reasons, the group of Warszawa-Wisla-Budryk-Lebzeltern-Upper Witos Chambers (Photo. 1, 2. 3) located the Kazanów mid-level at a depth of 117 m underground is extremely important. Discontinuous deformation occurring in this Chamber complex was eliminated by comprehensive securing work with anchor housing, but their final securing and stability is conditioned by further backfilling and sealing the Witos Chambers situated directly beneath. In the 1940s and 1950s, the Witos Chamber was backfilled with slag from the mine boilerhouse. However, slags with 80% compressibility are not backfilling material which would ensure the stability of the rock mass. The chambers were exploited in the early nineteenth century in the Spizit salts of the central part of the layered deposit. The condition of the Upper Witos, Wisla, Warszawa, Budryk, and Lebzeltern Chambers is generally good. The western part if the Lebzeltern Chamber (Fig. 1), which was threatened with collapse, was backfilled with sand. In all the chambers of the Witos complex, local deformation of ceiling rock of varying intensity is observed as well as significant destruction of the side walls of pillars between chambers. No hydrogeological phenomena are observed in the chambers. It has been attempted to solve the problem of stability of the rock mass in this region of the mine by extracting the slag and backfilling with sand, erecting concrete supporting pillars, backfilling the voids with sand, anchoring the ceiling and the side walls, the use of the pillar housing. The methods have either not been applied or have been proved insufficient to properly protect the excavation situated above. In order to select the optimal securing method, a geomechanical analysis was conducted in order to determine the condition of the chambers with particular emphasis on the pillars between the chambers. The analysis demonstrated the need to backfilling the Witos Chambers in order to improve the strength parameters of the pillars and the cross-level ledge. The next step consisted of selecting the sealing mix and testing how the additional burden and improving the slag strength parameters shall affect the stability of the excavations of the Kazanów mid-level. In order to determine the optimal composition of the backfilling mixtures, formulas of sealing brine slurries have been developed. Laboratory tests were also conducted concerning the strain parameters specifications of slags extracted from the Witos Chamber. Taking into account the slurry tests, and in particular, the density, strength and strain parameters, the optimal composition of the sealing mix was selected. The analysis of the results of numerical recalculations demonstrate that even the use of highest-density mixtures, backfilling(sealing) of the Witos Chambers should not cause significant disturbance of the current tension in the surrounding rock mass. The longterm impact of sealing should lead to improvement of the strain levels on the ledges between Level III and Kazanów mid-level chambers. The positive results of applying in the Mine of injection slurries for sealing and stabilizing the rock mass and the construction of the injection node on the surface of the Kosciuszko shaft area have allowed resuming work in the Witos Chambers. The main injection over 1,000 m long pipeline was constructed from the injection node through the Kosciuszko Shaft and along Level III of the mine. The sealing of the Witos Chambers complex was divided into three areas (Fig. 2) separated by backfilling dams. Each region was connected to an injection and venting pipeline, and areas of possible injection material off-flow from backfilling locations were secured. Once that the Chambers are sealed with the use of the pipeline seven bore holes will be drilled from excavations situated above through which the sealing slurry will be administered. The operation will serve to eliminate any voids and re-seal the slag, and it will be conducted until pressures of approximately 0.5 MPa on the bore hole collar is achieved. As past experience indicates, injection slurry formula can be regularly adjusted adequately to the changing geomechanical parameters and the type of sealing work at the Wieliczka Mine. Once that the backfilling and sealing process in the Witos Chambers complex is completed, it shall be necessary to conduct monitoring activities in order to determine the processes occurring in the rock mass after the backfilling. The properties of sealing mixtures qualify those for use in the environment both of salt mines and other mineral ore mines to stabilize the rock mass in the mining-geomechanical context precluding the possibility of weakening the rock mass strength parameters and at the same time sealing the rock mass and the loose material deposited in the excavation.

  16. 3Corners of the World / Joosep Sang

    Index Scriptorium Estoniae

    Sang, Joosep

    2009-01-01

    Arvustused : Robert Jürjendal, Petri Kuljuntausta, David Rothenberg. 3Corners of the World. [Tallinn] : Terra Nova Music, 2008. Nadia ja Fragile. Uhke ali. [Tallinn] : Nadia & Fragile, 2008. UMA. Civitas Soli. [Tallinn] : Elwood, 2008. Uutest heliplaatidest

  17. Estonian science breeds world-class researches / ToivoTänavsuu, Hille Tänavsuu

    Index Scriptorium Estoniae

    Tänavsuu, Toivo

    2010-01-01

    Eesti teadusfirmadest: biotehnoloogia ettevõtted Celecure AS, Protobios OÜ, Icosagen AS, Asper Biotech AS ja Solis BioDyne OÜ, geenitehnoloogia firma Genorama OÜ, keemiatehnoloogia ettevõte AS Cambrex Tallinn

  18. DMPD: Distinct functions of IRF-3 and IRF-7 in IFN-alpha gene regulation and controlof anti-tumor activity in primary macrophages. [Dynamic Macrophage Pathway CSML Database

    Lifescience Database Archive (English)

    Full Text Available trolof anti-tumor activity in primary macrophages. Solis M, Goubau D, Romieu-Mourez R, Genin P, Civas A, Hiscott... D, Romieu-Mourez R, Genin P, Civas A, Hiscott J. Publication Biochem Pharmacol.

  19. Incidence of urinary retention during treatment with single tablet combinations of solifenacin+tamsulosin OCAS™ for up to 1 year in adult men with both storage and voiding LUTS: A subanalysis of the NEPTUNE/NEPTUNE II randomized controlled studies.

    Directory of Open Access Journals (Sweden)

    Marcus J Drake

    Full Text Available The emergence of urinary retention (UR, specifically acute urinary retention (AUR, has been a concern when treating men with lower urinary tract symptoms (LUTS with antimuscarinic drugs.In NEPTUNE (12-week, double-blind, men (≥45 years with LUTS were randomized to receive tamsulosin oral-controlled absorption system (TOCAS 0.4 mg, fixed-dose combination (FDC of solifenacin (Soli 6 mg + TOCAS 0.4 mg, FDC Soli 9 mg + TOCAS 0.4 mg, or placebo. In NEPTUNE II (40-week, open-label extension of NEPTUNE, continuing patients received 4-week FDC Soli 6 mg + TOCAS, then FDC Soli 6 mg or 9 mg + TOCAS for the remainder of the study, switchable every 3 months.Across both studies, 1208 men received ≥1 dose of FDC Soli 6 mg or 9 mg + TOCAS for up to 52 weeks; 1199 men completed NEPTUNE and 1066 received ≥1 dose in NEPTUNE II. In total, 13 men (1.1%; 95% CI, 0.6%-1.8% reported a UR event while receiving FDC, eight of which were AUR (0.7%; 95% CI, 0.3%-1.3%, incidence 7/1000 man-years. Six men reported UR events while taking Soli 6 mg + TOCAS (three AUR, and seven men reported a UR event while taking Soli 9 mg + TOCAS (five AUR. One man developed AUR while taking TOCAS alone and four reported UR (three AUR during placebo run-in. Most AUR/UR events occurred within 4 months of treatment initiation.FDC Soli and TOCAS was associated with a low rate of UR and AUR in men with LUTS.

  20. Maternal intravenous treatment with either azithromycin or solithromycin clears Ureaplasma parvum from the amniotic fluid in an ovine model of intrauterine infection.

    Science.gov (United States)

    Miura, Yuichiro; Payne, Matthew S; Keelan, Jeffrey A; Noe, Andres; Carter, Sean; Watts, Rory; Spiller, Owen B; Jobe, Alan H; Kallapur, Suhas G; Saito, Masatoshi; Stock, Sarah J; Newnham, John P; Kemp, Matthew W

    2014-09-01

    Intrauterine infection with Ureaplasma spp. is strongly associated with preterm birth and adverse neonatal outcomes. We assessed whether combined intraamniotic (IA) and maternal intravenous (IV) treatment with one of two candidate antibiotics, azithromycin (AZ) or solithromycin (SOLI), would eradicate intrauterine Ureaplasma parvum infection in a sheep model of pregnancy. Sheep with singleton pregnancies received an IA injection of U. parvum serovar 3 at 85 days of gestational age (GA). At 120 days of GA, animals (n=5 to 8/group) received one of the following treatments: (i) maternal IV SOLI with a single IA injection of vehicle (IV SOLI only); (ii) maternal IV SOLI with a single IA injection of SOLI (IV+IA SOLI); (iii) maternal IV AZ and a single IA injection of vehicle (IV AZ only); (iv) maternal IV AZ and a single IA injection of AZ (IV+IA AZ); or (v) maternal IV and single IA injection of vehicle (control). Lambs were surgically delivered at 125 days of GA. Treatment efficacies were assessed by U. parvum culture, quantitative PCR, enzyme-linked immunosorbent assay, and histopathology. Amniotic fluid (AF) from all control animals contained culturable U. parvum. AF, lung, and chorioamnion from all AZ- or SOLI-treated animals (IV only or IV plus IA) were negative for culturable U. parvum. Relative to the results for the control, the levels of expression of interleukin 1β (IL-1β), IL-6, IL-8, and monocyte chemoattractant protein 2 (MCP-2) in fetal skin were significantly decreased in the IV SOLI-only group, the MCP-1 protein concentration in the amniotic fluid was significantly increased in the IV+IA SOLI group, and there was no significant difference in the histological inflammation scoring of lung or chorioamnion among the five groups. In the present study, treatment with either AZ or SOLI (IV only or IV+IA) effectively eradicated macrolide-sensitive U. parvum from the AF. There was no discernible difference in antibiotic therapy efficacy between IV-only and IV

  1. Hereditary multiple exostoses in a 15-year-old boy: A case report ...

    African Journals Online (AJOL)

    2016-09-06

    Sep 6, 2016 ... epiphyses, and metachondromatosis, a rare disorder that exhibit symptoms of both multiple osteochondromas and enchondromas in children and is also inherited in auto- somal dominant mode.4. Treatment of HME is individualized and much more problematic and complex than that of patients with soli-.

  2. Études de cas portant sur la recherche, les partenariats et l'équité en ...

    International Development Research Centre (IDRC) Digital Library (Canada)

    16 juil. 2012 ... Jerry M Spiegel, Jaime Breilh, Efrain Beltran, Jorge Parra, Fernanda Solis, Annalee Yassi, Alejandro Rojas, Elena Orrego, Bonnie Henry, William R ... Alexandra Martiniuk, Ruth Cornick, Gill Faris, Beverley Draper, Martha Mondiwa, Egnat Katengeza, Lifah Sanudi, Merrick Zwarenstein, Michael J Schull.

  3. Eestlased rajavad omaenda oaasi Ränioru mägismaal / Martin Hanson

    Index Scriptorium Estoniae

    Hanson, Martin, 1984-

    2008-01-01

    EAS-i California esinduse töötaja Andrus Viirg tutvustab Eesti ettevõtete võimalusi äritegevuse alustamiseks ja investorite leidmiseks Silicon Valley's. Vt. samas: Skype'i tuules lendavad ettevõtted. San Joses kavandavad kontori avamist Eesti ettevõtted Yoga Intelligence, Myoton ja Solis Biodyne

  4. Head-on collision of dust-ion-acoustic solitons in electron-dust-ion ...

    Indian Academy of Sciences (India)

    acoustic (DIA) soli- tons in quantum electron-dust-ion plasma. Using the extended Poincaré–Lighthill–Kuo (PLK) method, we obtain the Korteweg–de Vries (KdV) equations, the phase shifts and the trajecto- ries after the head-on collision of the two ...

  5. Crash-Test mit Doppelhüllenschiffen

    NARCIS (Netherlands)

    Vredeveldt, A.W.; Wevers, L.J.

    1999-01-01

    Die Konsequenzen von Kollisionen und Grundberiihrungen von Schiffen ktinnen heutzutage von Entwerfern und Redern nicht mehr ignoriert werden. Im Falle von VLCC's (Grosstanker) und Chemikalientanker soli Verlust von Gefahrgut und umweltgefáhrlichen Stoffen vermieden werden. Bild 1 zeigt die Folgen

  6. The Datsuns : külalised eriti kaugelt. Popid poisid Norrast

    Index Scriptorium Estoniae

    2007-01-01

    Uus-Meremaa rockansamblist The Datsuns (www.thedatsuns.com), albumitest "The Datsuns", "Smoke and Mirrors". Norra rockansamblist Apoptygma Berzerk (www.apoptygmaberzerk.de), albumitest "Soli Deo Gloria, "7", "Welcome To Earth", "Harmonizer", "You and Me Against the World", "Sonic Diary". Info festivalist: www.rabarock.delfi.ee / www.rabarock.ee

  7. De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity

    Science.gov (United States)

    Among next generation sequence technologies, platforms such as Illumina and SOLiD produce short reads but with higher coverage and lower cost per sequenced nucleotide than 454 or Sanger. A challenge now is to develop efficient strategies to use short-read length platforms for de novo assembly and ma...

  8. Transportation Energy Conservation Data Book: A Selected Bibliography. Edition 3,

    Science.gov (United States)

    1978-11-01

    HDemand for Gasoline: Application of Commodity Hierarchy Theory* 000116 #Driving and Energy Conservation. Highlight Report. Volume XXI * 000686 of a...8217 Ponoreid litilitv Trno:h in Two Years o t ’ a service Test Programa 000415 of Soli,! commollti’s ,ii Prr, flj pi ir . Volsens U- V* ITransport 000776

  9. Incineration and co-combustion of waste: accounting of greenhouse gases and global warming contributions

    DEFF Research Database (Denmark)

    Astrup, Thomas; Møller, Jacob; Fruergaard, Thilde

    2009-01-01

    Important greenhouse gas (GHG) emissions related to waste incineration and co-combustion of waste were identified and considered relative to critical aspects such as: the contents of biogenic and fossil carbon, N2O emissions, fuel and material consumptions at the plants, energy recovery, and soli...

  10. UNPUBLISHED TEXTS / INEDITI

    African Journals Online (AJOL)

    User

    Cambio con la luna che cambia. Sorgo con i soli. Cresco e mi raccolgo con le maree. Fulmino come il fulmine. Nella secca campagna selvaggia punteggiata di cactus il Rio Grande ha fatto solchi profondi. In queste colline sono nato. Sono emerso da un sipapu in queste rocce. Dall'ombelico scuro della terra sono emerso ...

  11. Another new Lygodium-boring species of the musotimine genus Siamusotima (Lepidoptera: Crambidae) from China

    Science.gov (United States)

    Siamusotima disrupta Solis, n. sp., is a stem-boring musotimine from China. It was discovered in the stems of several Lygodium Sw. species (Lygodiaceae) during exploration for biological control agents of Lygodium microphyllum (Cav.) R. Br., the Old World climbing fern. This is the second report of ...

  12. New Initiatives for Synoptic Observations

    Indian Academy of Sciences (India)

    tribpo

    131. Figure 4. The SOLIS mount. 5.2 Vector Spectromagnetograph (VSM). The VSM is a 50 cm quasi RC telescope with an active secondary mirror that com pensates for image motion and telescope shake up to 40 Hz. The telescope is filled with helium to reduce internal seeing by about a factor of 10 and has a 6 mm thick.

  13. miRSeqNovel

    DEFF Research Database (Denmark)

    Qian, Kui; Auvinen, Eeva; Greco, Dario

    2012-01-01

    We present miRSeqNovel, an R based workflow for miRNA sequencing data analysis. miRSeqNovel can process both colorspace (SOLiD) and basespace (Illumina/Solexa) data by different mapping algorithms. It finds differentially expressed miRNAs and gives conservative prediction of novel miRNA candidates...

  14. LANDFILL GAS EMISSIONS MODEL (LANDGEM) VERSION 3.02 USER'S GUIDE

    Science.gov (United States)

    The Landfill Gas Emissions Model (LandGEM) is an automated estimation tool with a Microsoft Excel interface that can be used to estimate emission rates for total landfill gas, methane, carbon dioxide, nonmethane organic compounds, and individual air pollutants from municipal soli...

  15. Brasil, estudos pós-coloniais e contracorrentes análogas: entrevista com Ella Shohat e Robert Stam

    NARCIS (Netherlands)

    dos Santos, E.R.S.; Schor, P.

    2013-01-01

    Interview with Ella Shohat and Robert Stam (Portuguese translation). Original version: Brazil is not Traveling Enough”: On Postcolonial Theory and Analogous Counter-Currents (http://www2.let.uu.nl/solis/psc/P/PVOLUMEFOUR/PVOLUMEFOURPAPERS/P4SHOHAT-STAM-INTERVIEW.pdf)

  16. Inoculation of Ceratonia siliqua L. with native arbuscular mycorrhizal ...

    African Journals Online (AJOL)

    Ouhmane

    sécheresse du caroubier. Rev. Res. Amélior. Prod. Milieu Aride 1:47-. 55. Requena N, Perez-Solis E, Azcon-Aguilar C, Jeffries P, Barea JM. (2001). Management of indigenous plant-microbe symbioses aids restoration of desertified ecosystems. Appl. Environ. Microbiol. 67:495-498. Requena N, Jeffries P, Barea JM (1996).

  17. Corrigendum : EEG beta suppression and low gamma modulation are different elements of human upright walking

    NARCIS (Netherlands)

    Seeber, M.; Scherer, R.; Wagner, J.; Solis Escalante, T.; Müller-Putz, G.R.

    2015-01-01

    A corrigendum on EEG beta suppression and low gamma modulationare different elements of human upright walking by Seeber,M.,Scherer,R.,Wagner,J.,Solis-Escalante,T.,andMüller-Putz,G.R.(2014)Front.Hum. Neurosci.8:485.doi:10.3389/fnhum.2014.00485

  18. Palindromic sequence impedes sequencing-by-ligation mechanism.

    Science.gov (United States)

    Huang, Yu-Feng; Chen, Sheng-Chung; Chiang, Yih-Shien; Chen, Tzu-Han; Chiu, Kuo-Ping

    2012-01-01

    Current next-generation sequencing (NGS) platforms adopt two types of sequencing mechanisms: by synthesis or by ligation. The former is employed by 454 and Solexa systems, while the latter by SOLiD system. Although the pros and cons for each sequencing mechanism have more or less been discussed in a number of occasions, the potential obstacle imposed by palindromic sequences has not yet been addressed. To test the effect of the palindromic region on sequencing efficacy, we clonally amplified a paired-end ditag sequence composed of a 24-bp palindromic sequence flanked by a pair of tags from the E. coli genome. We used the near homogeneous fragments produced from MmeI digestion of the amplified clone to generate a sequencing library for SOLiD 5500xl sequencer. Results showed that, traditional ABI sequencers, which adopt sequencing-by-synthesis mechanism, were able to read through the palindromic region. However, SOLiD 5500xl was unable to do so. Instead, the palindromic region was read as miscellaneous random sequences. Moreover, readable tag sequence turned obscure ~2 bp prior to the palindromic region. Taken together, we demonstrate that SOLiD machines, which employ sequencing-by-ligation mechanism, are unable to read through the palindromic region. On the other hand, sequencing-by-synthesis sequencers had no difficulty in doing so.

  19. Structural, electrical and optical studies on spray-deposited ...

    Indian Academy of Sciences (India)

    Structural, electrical and optical studies on spray-deposited ZnO. Table 1. Spray parameters for film deposition. Spray parameter. Value. Concentration of zinc acetate solution. 0.1 M. Nozzle–substrate ..... [13] F Paraguay, D M Miki-Yoshida, J Morales, J Solis and W Estrada, Thin Solid Films 373, 137. (2000). [14] B Baruwati ...

  20. Inherent hazards, poor reporting and limited learning in the solid biomass energy sector: A case study of a wheel loader igniting wood dust, leading to fatal explosion at wood pellet manufacturer

    DEFF Research Database (Denmark)

    Hedlund, Frank Huess; Astad, John; Nichols, Jeffrey

    2014-01-01

    Large loaders are commonly used when handling solid biomass fuels. A preventable accident took place in 2010, where the malfunction of a front-end wheel loader led to a dust explosion which killed the driver and destroyed the building. The case offers an opportunity to examine the hazards of soli...

  1. 77 FR 2347 - Additional Designations, Foreign Narcotics Kingpin Designation Act

    Science.gov (United States)

    2012-01-17

    ... ZEPEDA, Oscar, Avenida Francisco Solis No. 30-B, Colonia Vicente Lombardo Toledano, Culiacan, Sinaloa C.P. 80010, Mexico; Boulevard Universitarios No. 789, Local 4, Colonia Villa Universidad, Culiacan, Sinaloa C.P. 80010, Mexico; Localidad San Jose del Barranco S/N, Badiraguato, Sinaloa C.P. 80500, Mexico; DOB...

  2. Fulltext PDF

    Indian Academy of Sciences (India)

    Mst Shekha Khatun

    2017-05-31

    May 31, 2017 ... non-local non-linear media [17–19]. Recently, many researchers are engaged in finding shock waves, soli- tons, singular solitons and optical solitons of different models, which arise in mathematical physics [20–31]. Some advanced applications of such new analyti- cal methods for practical problems have ...

  3. U.S. EPA, Pesticide Product Label, O-C CLENCIDE DETERGENT SANITIZER, 01/27/1981

    Science.gov (United States)

    2011-04-21

    ... 11 ... III .... 01111 lOll fOl' ~ to ;j lIIiuUh!S. H"llIm·,'. lll' .... f' \\lolita Iu)I.!1Il.· ',\\tll', .tI,,j dl\\. ro: ll.Jt :"dIlLln·:-, . f'an [0 1t'1II0V(! .~IW"'''' 111111 ;twi Il";I\\'\\' soli. ...

  4. Luteibacter rhizovicinus gen. nov., sp nov., a yellow-pigmented gammaproteobacterium isolated from the rhizosphere of barley (Hordeum vulgare L.)

    DEFF Research Database (Denmark)

    Johansen, Jens E.; Binnerup, Svend J.; Kroer, Niels

    2005-01-01

    ) had a DNA G+C content of 64.3 mol% and the major fatty acids were 15:0 iso (23.4%), 17: 1 iso omega 9c (25.5%) and 17 :0 iso (18.1 %). Phylogenetic analysis of the 16S rRNA gene sequences of the three strains showed 96 % sequence similarity to Rhodanobacter lindaniclasticus LMG 18385(T), 95...... % to Frateuria aurantia DSM 6220(T) and 96 % to Fulvimonas soli LMG 19981(T). Using LJ96(T) DNA as probe, DNA-DNA hybridizations documented the relationship of the three strains to a single species (87.4-98.7% relatedness) and showed less than 30% relatedness to Frateuria aurantia DSM 62207 and Fulvimonas soli...

  5. A Computational Framework for Design and Development of Novel Prostate Cancer Therapies

    Science.gov (United States)

    2015-09-01

    However, the genetic characters (e.g., AR and p53 status) of prostate cancer may influence their responses to drug treatment. Further investigation is...of 0.375 angstroms. The grid size was selected to fit the whole ligand molecule. We used the Lamarckian Genetic Algorithm, called Pseudo Solis-Wets...Myc binding protein. Oncogene 2010; 29: 4980–4988. 46. Lam KS, Salmon SE, Hersh EM, Hruby VJ, Kazmierski WM, Knapp RJ. A new type of synthetic peptide

  6. Gendered Politics

    OpenAIRE

    Luconi, Stefano

    2016-01-01

    Political incorporation resulting from voter participation is often a relevant feature of the migration experience. When the legislation of the receiving nations enables the newcomers to get naturalized and grants citizenship to their children born in the adoptive country by means of the jus soli, as is the case of the United States, casting ballots in the elections of the land of their destination usually becomes part of the first and second-generation immigrants’ accommodation into the host...

  7. New methods for next generation sequencing based microRNA expression profiling

    OpenAIRE

    den Dunnen Johan T; van Ommen Gertjan; Ariyurek Yavuz; Buermans Henk PJ; 't Hoen Peter AC

    2010-01-01

    Abstract Background MicroRNAs are small non-coding RNA transcripts that regulate post-transcriptional gene expression. The millions of short sequence reads generated by next generation sequencing technologies make this technique explicitly suitable for profiling of known and novel microRNAs. A modification to the small-RNA expression kit (SREK, Ambion) library preparation method for the SOLiD sequencing platform is described to generate microRNA sequencing libraries that are compatible with t...

  8. The reversal of the Sun's magnetic field in cycle 24

    OpenAIRE

    Mordvinov, Alexander V.; Pevtsov, Alexei A.; Bertello, Luca; Petrie, Gordon J. D.

    2016-01-01

    Analysis of synoptic data from the Vector Stokes Magnetograph (VSM) of the Synoptic Optical Long-term Investigations of the Sun (SOLIS) and the NASA/NSO Spectromagnetograph (SPM) at the NSO/Kitt Peak Vacuum Telescope facility shows that the reversals of solar polar magnetic fields exhibit elements of a stochastic process, which may include the development of specific patterns of emerging magnetic flux, and the asymmetry in activity between northern and southern hemispheres. The presence of su...

  9. Effects of Low and High Oxygen Tensions and Related Respiratory Conditions on Visual Performance: A Literature Review

    Science.gov (United States)

    1988-07-01

    perception during oxygen deficiency provided by Rose (1950a), Heinke (1942) used Koch’s depth percegtion testing apparatus on 11 subjects who were familiar ...1955), and ten Doesschate (1955) which were described above. Ohlbaum’s subjects were highly familiar with decompression and this may have been a...Richerche comparative sull’azione dell’anossta e dell’alcool da soli o associati. BRivisa 1 Medicina Aeronautica,. 12:198-210. Bietti, G. B., and Giardini, A

  10. Criteria of citizenship and social inclusion in immigrants' discourse in Greece.

    OpenAIRE

    Sapountzis, A; Xenitidou, Maria

    2017-01-01

    Naturalization criteria play an important role in who can be accepted as a member of a national polity. In the political and social sciences often a distinction is drawn between the right of blood- jus sanguinis- and the right of soil-jus soli- as guiding principles for naturalization. This distinction corresponds to the two different types of nationalism and national belonging identified by Kohn (1945, 1955) namely “ethnic” nationalism and “civic” nationalism. In social psychology this disti...

  11. Commentary on "The Happy Xylophone: Acoustics Affordances Restrict An Emotional Palate" by Michael Schutz, David Huron, Kristopher Keeton, & Greg Loewer

    Directory of Open Access Journals (Sweden)

    Zohar Eitan

    2008-09-01

    Full Text Available In this commentary, I raise several issues of method and presentation and suggest a number of follow-up experiments associated with some of these issues. Broad suggestions are also made (or rather preached: the need to deal empirically with musical emotions subtler than the oft-investigated basic emotions, and the role that interactions between musical variables may play in shaping subtle musical expression, as exemplified by some well-known xylophone soli from the orchestral repertory.

  12. The Snap Tension Analysis of Taut-Slack Mooring Line with tanh Method

    OpenAIRE

    Su-xia Zhang; Rui-zhi Shi; Shengli Chen; Xi-jun Liu

    2017-01-01

    The continuous model is introduced, and the nonlinear partial differential equations of taut-slack mooring line system are transferred to nonlinear algebraic equations through tanh method, and four solitary solutions are obtained further. At the same time, to express the results clearly, the curve surfaces of strains, displacements, and tension are plotted. The results show that there are four different solutions in the system. With the pretension increasing, the tension changes from one soli...

  13. First isolation of oleate-dependent Enterococcus faecalis small-colony variants from the umbilical exudate of a paediatric patient with omphalitis

    OpenAIRE

    Kubota, Noriko; Kuzumoto, Kei; Hidaka, Eiko; Yoshizawa, Katsumi; Yumoto, Kayoko; Oana, Kozue; Ogiso, Yoshifumi; Nakamura, Tomohiko; Kawakami, Yoshiyuki

    2013-01-01

    An oleate-dependent Enterococcus faecalis isolate representing small-colony variants (SCVs) was isolated from the umbilical exudate of a 31-month-old Japanese male patient in Nagano Children's Hospital, Azumino, Japan. The patient had been suffering from recurrent omphalitis since early infancy. The initial E. faecalis SCV isolate formed small colonies on sheep blood agar plates and tiny colonies on chocolate and modified Drigalski agar, although no visible growth was observed in HK-semi soli...

  14. Beyond the audiogram: application of models of auditory fitness for duty to assess communication in the real world.

    Science.gov (United States)

    Dubno, Judy R

    2018-05-01

    This manuscript provides a Commentary on a paper published in the current issue of the International Journal of Audiology and the companion paper published in Ear and Hearing by Soli et al. These papers report background, rationale and results of a novel modelling approach to assess "auditory fitness for duty," or an individual's ability to perform hearing-critical tasks related to their job, based on their likelihood of effective speech communication in the listening environment in which the task is performed.

  15. An efficient asymmetric synthesis of (–)-wodeshiol

    Indian Academy of Sciences (India)

    De Leon E J, Olmedo D A, Solis P N, Gupta M P,. Terencio M C 2002 Planta Med. 68 1128. 4. Hoang V D, Tan G T, Zhang H J, Tamez P A, Nguyen. M C, Soejrto D D, Fong H H S, Pezzuto J M 2002. Phytochemistry 59 325. 5. MacRae W D, Towers G H N 1984 Phytochemistry 23. 1207. 6. Brown R C, Bataille C J, Bruton G, ...

  16. Congenital neuroblastoma with placental involvement

    OpenAIRE

    Kume, Ayako; Morikawa, Teppei; Ogawa, Makiko; Yamashita, Aki; Yamaguchi, Shunichi; Fukayama, Masashi

    2014-01-01

    We describe an extremely rare case of congenital neuroblastoma with placental involvement. A fetus with a left abdominal mass detected during ultrasonography at 23 weeks’ gestation developed hydrops fetalis by 26 weeks’ gestation. The mother developed hypertension at 26 5/7 weeks’ gestation. Based on a clinical diagnosis of pregnancy-induced hypertension, labor was induced at 26 6/7 weeks. However, intrauterine fetal death was diagnosed during delivery. Postmortern examination revealed a soli...

  17. Analýza výrobního procesu vybraného produktu ve farmaceutickém průmyslu

    OpenAIRE

    Pospíšilová, Lucie

    2013-01-01

    Bachelor thesis utilizes lean tools to improve manufacturing process and suggest effective recommendations. The aim of this thesis is to use process mapping to identify possible wastes. The first part contains characterization of the pharmaceutical industry, market definition and classification of a company Zentiva Group a.s. The second part describes terms of lean manufacturing and analytic process tools used in the practical part. Process tools are applied to a manufacturing process of soli...

  18. kyste hydatique du masséter

    African Journals Online (AJOL)

    parasite. Le parasite emprunte ensuite le système porte pour se disséminer dans le corps humain, ce qui explique la rareté de l'atteinte extrahépatopulmonaire (1, 2,5). Engin et Sözuêr avancent la théorie d'une voie lympha- tique pour expliquer les localisations atypiques et soli- taires au niveau des parties molles (in6).

  19. Citizen or Subordinate: Permutations of Belonging in the United States and the Dominican Republic

    Directory of Open Access Journals (Sweden)

    Shaina Aber

    2013-09-01

    Full Text Available The Dominican Republic and the United States have both experienced tensions arising from migratory flows from poorer, less stable neighbors. Until recently, both countries had constitutions which conferred citizenship by birth with very limited exceptions. Despite these similarities, their respective discourses around jus soli citizenship, particularly for the children of unauthorized migrants from the poorer neighboring countries, have manifested in different ways. The identity of the United States as a nation of immigrants has limited the success of campaigns to revoke jus soli citizenship for the children of unauthorized immigrants, but the persistent articulation of this idea as a response to illegal migration has shifted the parameters of the immigration debate. In the Dominican Republic, the historical construction of national identity and anti-Haitian discourse has led to an evolution in Dominican law which codifies already established practices that deny citizenship to children of Haitian migrants. In both cases, movements that support more inclusive understandings of societal belonging, like the DREAMers in the United States and youth movements in the Dominican Republic, may offer the most effective way of protecting universal jus soli citizenship regimes. 

  20. Novel ultramicrobacterial isolates from a deep Greenland ice core represent a proposed new species, Chryseobacterium greenlandense sp. nov.

    Science.gov (United States)

    Loveland-Curtze, Jennifer; Miteva, Vanya; Brenchley, Jean

    2010-01-01

    Three novel orange, ultramicrobacterial isolates, UMB10, UMB14, and UMB34(T) were isolated from enrichment cultures inoculated with a melted 3,043 m deep Greenland ice core sample. Phylogenetic analysis of the 16S rRNA gene sequences indicated that the isolates belonged to a single species within the genus Chryseobacterium. They were most closely related to Chryseobacterium aquaticum (99.3%), Chryseobacterium soli (97.1%), and Chryseobacterium soldanellicola (96.9%). Genomic hybridization showed low levels of relatedness between UMB34(T) and C. aquaticum and C. soldanellicola (19-30%) and C. soli and Chryseobacterium jejuense (45-56%). Comparative genomic fingerprinting analysis using the enterobacterial repetitive intergenic consensus (ERIC) sequence showed nearly identical banding patterns for the three isolates and these patterns were distinct from those of C. aquaticum, C. soldanellicola, C. soli, and C. jejuense. The cells were short rods, lacked flagella, had cell volumes of species, it was concluded that these isolates represent a new species for which the name, Chryseobacterium greenlandense is proposed. The type strain is UMB34(T) (=CIP 110007T = NRRL B-59357).

  1. The family name Solimonadaceae Losey et al. 2013 is illegitimate, proposals to create the names 'Sinobacter soli' comb. nov. and 'Sinobacter variicoloris' contravene the Code, the family name Xanthomonadaceae Saddler and Bradbury 2005 and the order name Xanthomonadales Saddler and Bradbury 2005 are illegitimate and notes on the application of the family names Solibacteraceae Zhou et al. 2008, Nevskiaceae Henrici and Johnson 1935 (Approved Lists 1980) and Lysobacteraceae Christensen and Cook 1978 (Approved Lists 1980) and order name Lysobacteriales Christensen and Cook 1978 (Approved Lists 1980) with respect to the classification of the corresponding type genera Solibacter Zhou et al. 2008, Nevskia Famintzin 1892 (Approved Lists 1980) and Lysobacter Christensen and Cook 1978 (Approved Lists 1980) and importance of accurately expressing the link between a taxonomic name, its authors and the corresponding description/circumscription/emendation.

    Science.gov (United States)

    Tindall, B J

    2014-01-01

    In a recent publication the name Solimonadaceae Losey et al. 2013 has been proposed as a replacement name for the family name Sinobacteraceae Zhou et al. 2008. This course of action contravenes the current Code governing the nomenclature of prokaryotes, making Solimonadaceae Losey et al. 2013 an illegitimate name that neither has claim to priority nor can be used as a correct name. Closer examination of publications dealing with the taxonomy of members of the genera Solimonas and Sinobacter and the placement of these taxa at the rank of family and order reveal problems associated with the application of the family names Sinobacteraceae Zhou et al. 2008, Nevskiaceae Henrici and Johnson 1935 (Approved Lists 1980) and Lysobacteraceae Christensen and Cook 1978 (Approved Lists 1980) and the order names Lysobacterales Christensen and Cook 1978 (Approved Lists 1980) and Xanthomonadales Saddler and Bradbury 2005.

  2. Segmental kyphosis after cervical interbody fusion with stand-alone polyetheretherketone (PEEK) cages: a comparative study on 2 different PEEK cages.

    Science.gov (United States)

    Kim, Chi Heon; Chung, Chun Kee; Jahng, Tae-Ahn; Park, Sung Bae; Sohn, Seil; Lee, Sungjoon

    2015-02-01

    Retrospective comparative study. Two polyetheretherketone (PEEK) cages of different designs were compared in terms of the postoperative segmental kyphosis after anterior cervical discectomy and fusion. Segmental kyphosis occasionally occurs after the use of a stand-alone cage for anterior cervical discectomy and fusion. Although PEEK material seems to have less risk of segmental kyphosis compared with other materials, the occurrence of segmental kyphosis for PEEK cages has been reported to be from 0% to 29%. There have been a few reports that addressed the issue of PEEK cage design. A total of 41 consecutive patients who underwent single-level anterior discectomy and fusion with a stand-alone cage were included. Either a round tube-type (Solis; 18 patients, S-group) or a trapezoidal tube-type (MC+; 23 patients, M-group) cage was used. The contact area between the cage and the vertebral body is larger in MC+ than in Solis, and anchoring pins were present in the Solis cage. The effect of the cage type on the segmental angle (SA) (lordosis vs. kyphosis) at postoperative month 24 was analyzed. Preoperatively, segmental lordosis was present in 12/18 S-group and 16/23 M-group patients (P=0.84). The SA was more lordotic than the preoperative angle in both groups just after surgery, with no difference between groups (P=0.39). At 24 months, segmental lordosis was observed in 9/18 S-group and 20/23 M-group patients (P=0.01). The patients in M-group were 7.83 times more likely than patients in S-group (P=0.04; odds ratio, 7.83; 95% confidence interval, 1.09-56.28) not to develop segmental kyphosis. The design of the PEEK cage used may influence the SA, and this association needs to be considered when using stand-alone PEEK cages.

  3. High-resolution analysis of the 5'-end transcriptome using a next generation DNA sequencer.

    Directory of Open Access Journals (Sweden)

    Shin-ichi Hashimoto

    Full Text Available Massively parallel, tag-based sequencing systems, such as the SOLiD system, hold the promise of revolutionizing the study of whole genome gene expression due to the number of data points that can be generated in a simple and cost-effective manner. We describe the development of a 5'-end transcriptome workflow for the SOLiD system and demonstrate the advantages in sensitivity and dynamic range offered by this tag-based application over traditional approaches for the study of whole genome gene expression. 5'-end transcriptome analysis was used to study whole genome gene expression within a colon cancer cell line, HT-29, treated with the DNA methyltransferase inhibitor, 5-aza-2'-deoxycytidine (5Aza. More than 20 million 25-base 5'-end tags were obtained from untreated and 5Aza-treated cells and matched to sequences within the human genome. Seventy three percent of the mapped unique tags were associated with RefSeq cDNA sequences, corresponding to approximately 14,000 different protein-coding genes in this single cell type. The level of expression of these genes ranged from 0.02 to 4,704 transcripts per cell. The sensitivity of a single sequence run of the SOLiD platform was 100-1,000 fold greater than that observed from 5'end SAGE data generated from the analysis of 70,000 tags obtained by Sanger sequencing. The high-resolution 5'end gene expression profiling presented in this study will not only provide novel insight into the transcriptional machinery but should also serve as a basis for a better understanding of cell biology.

  4. Derechos Humanos y competencia exclusiva del Estado en materia de nacionalidad (La sentencia de la Corte Interamericana de Derechos Humanos de 28 de agosto de 2104: Caso Personas dominicanas y haitianas expulsadas Vs. Rep??blica Dominicana)

    OpenAIRE

    S??nchez Lorenzo, Sixto A.

    2015-01-01

    La sentencia de la CIDH de 28 de agosto de 2014 obliga a la Rep??blica Dominicana a modificar su Constituci??n para conceder la nacionalidad por ius soli a los hijos de padres extranjeros que residan irregularmente en territorio dominicano. Sobre la base de los derechos humanos a la personalidad jur??dica, a la no discriminaci??n y a la nacionalidad, la CIDH determina un recorte sin precedentes a la competencia exclusiva del Estado en materia de nacionalidad. La presente nota contiene un an??...

  5. Zgradba solnih žlez pri rastlinah

    OpenAIRE

    Markočič, Nejka

    2018-01-01

    Halofiti so rastline, ki so se prilagodile na življenje v ekstremno slanem okolju. Da pa lahko v takem okolju preživijo, so morali razviti razne mehanizme odpornosti. Poleg osmotske prilagoditve in ionske tolerance poznamo tudi tkivno toleranco, ki vključuje solne žleze. To so žleze, ki izločajo viške soli bodisi iz rastline bodisi sol shranjujejo v vakuolah. Poznamo štiri različne tipe solnih žlez, ki se razlikujejo po zgradbi, številu celic, debelini kutikule in načinu delovanja. Žleze so l...

  6. Bioremediation of soil with diesel Through the use of autochthonous microorganisms

    International Nuclear Information System (INIS)

    Arrieta Ramirez, Olga Maria; Rivera Rivera, Angela Patricia; Arias Marin, Lida; Rojano, Benjamin Alberto; Ruiz, Orlando; Cardona Gallo, Santiago Alonso

    2012-01-01

    In this study was isolated and characterized biochemical and molecular a bacterial consortium able to degrade hydrocarbons several, comprised of the following genres: Enterobacter sp, Bacillus sp, Staphylococcus aureus, Sanguibacter soli, Arthrobacter spy Flavobacterium sp, from soil contaminated with diesel fuel in a laboratory scale, and treated with two technologies for bioremediation: natural attenuation and biostimulation. We obtained a reduction in the concentration of Total Petroleum Hydrocarbons (TPH) in a period of 4 months was 36,86% for natural attenuation and 50,99% for biostimulation.

  7. OMC-2 FIR 4: a laboratory to study the formation environment of the Solar System .

    Science.gov (United States)

    López-Sepulcre, A.; Fontani, F.; Neri, R.; Favre, C.; Ceccarelli, C.; Caselli, P.; SOLIS Team

    As part of the IRAM large programme SOLIS (Seeds Of Life In Space), we present NOEMA millimetre observations of OMC-2 FIR 4, a protostellar cluster in Orion likely to be a close analogue of the birth environment of the Solar System. Our results indicate that (i) OMC-2 FIR 4 is the most densely fragmented protocluster observed so far in our Galaxy, and (ii) carbon-chain growth is favoured by the presence of an energetic particle source located within OMC-2 FIR 4.

  8. Cell-bound complement activation products in systemic lupus erythematosus: comparison with anti-double-stranded DNA and standard complement measurements

    OpenAIRE

    Putterman, Chaim; Furie, Richard; Ramsey-Goldman, Rosalind; Askanase, Anca; Buyon, Jill; Kalunian, Kenneth; Chatham, W Winn; Massarotti, Elena; Kirou, Kyriakos; Jordan, Nicole; Blanco, Irene; Weinstein, Arthur; Chitkara, Puja; Manzi, Susan; Ahearn, Joseph

    2014-01-01

    Objective To compare the performance characteristics of cell-bound complement (C4d) activation products (CBCAPS) on erythrocyte (EC4d) and B cells (BC4d) with antibodies to double-stranded DNA (anti-dsDNA) and complement C3 and C4 in systemic lupus erythematosus (SLE). Methods The study enrolled 794 subjects consisting of 304 SLE and a control group consisting of 285 patients with other rheumatic diseases and 205 normal individuals. Anti-dsDNA and other autoantibodies were measured using soli...

  9. Triangolo di pensieri

    CERN Document Server

    Connes, Alain; Schützenberger, Marcel Paul

    2001-01-01

    Le grandi scoperte scientifiche del XX secolo, come la relatività generale, la meccanica quantistica o il teorema di Godel, modificano profondamente la nostra percezione della realtà. Questo libro intende offrire a un pubblico largo, ma colto, la possibilità di superare il divario crescente fra le sottigliezze di queste modificazioni, apprezzate dai soli specialisti, e l'immagine spesso deformata che ne danno i media o le opere di divulgazione. Il libro cerca di dare delle risposte attraverso uno scambio di idee fra tre studiosi, ciascuno dei quali rappresenta un vertice del 'triangolo di pensieri'.

  10. Hlapivi spojevi arome dalmatinske pancete proizvedene u različitim tehnološkim uvjetima

    OpenAIRE

    Krvavica, Marina; Milak, Vedrana

    2017-01-01

    Cilj ovog istraživanja bio je utvrditi u kojoj mjeri razlike u načinu soljenja (sa ili bez aditiva, utrošak soli/salamure, duljina faze soljenja), načinu dimljenja (ložište unutar ili izvan objekta i temperatura dima) te duljina sušenja i zrenja, utječu na sastav hlapivih spojeva arome dalmatinske pancete. U navedenu svrhu uzeta su po 2 uzorka dalmatinske pancete iz dva različita preradbena objekta na području Dalmacije, u kojima je panceta proizvedena na sljedeći način: objekt A – salamurenj...

  11. Coverage bias and sensitivity of variant calling for four whole-genome sequencing technologies.

    Directory of Open Access Journals (Sweden)

    Nora Rieber

    Full Text Available The emergence of high-throughput, next-generation sequencing technologies has dramatically altered the way we assess genomes in population genetics and in cancer genomics. Currently, there are four commonly used whole-genome sequencing platforms on the market: Illumina's HiSeq2000, Life Technologies' SOLiD 4 and its completely redesigned 5500xl SOLiD, and Complete Genomics' technology. A number of earlier studies have compared a subset of those sequencing platforms or compared those platforms with Sanger sequencing, which is prohibitively expensive for whole genome studies. Here we present a detailed comparison of the performance of all currently available whole genome sequencing platforms, especially regarding their ability to call SNVs and to evenly cover the genome and specific genomic regions. Unlike earlier studies, we base our comparison on four different samples, allowing us to assess the between-sample variation of the platforms. We find a pronounced GC bias in GC-rich regions for Life Technologies' platforms, with Complete Genomics performing best here, while we see the least bias in GC-poor regions for HiSeq2000 and 5500xl. HiSeq2000 gives the most uniform coverage and displays the least sample-to-sample variation. In contrast, Complete Genomics exhibits by far the smallest fraction of bases not covered, while the SOLiD platforms reveal remarkable shortcomings, especially in covering CpG islands. When comparing the performance of the four platforms for calling SNPs, HiSeq2000 and Complete Genomics achieve the highest sensitivity, while the SOLiD platforms show the lowest false positive rate. Finally, we find that integrating sequencing data from different platforms offers the potential to combine the strengths of different technologies. In summary, our results detail the strengths and weaknesses of all four whole-genome sequencing platforms. It indicates application areas that call for a specific sequencing platform and disallow other

  12. Los movimientos migratorios y la nueva configuración del tráfico externo (The Migratory Movements and the New Configuration of the International Private Relationships)

    OpenAIRE

    Fernández Rozas, José Carlos

    1987-01-01

    I. La inicidencia de los factores demográficos en la reglamentación del tráfico externo. 1. El protagonismo de los particulares en las relaciones privadas internacionales. 2. Los movimientos migratorios como condicionante de la reglamentación del tráfico externo. II. Movimientos migratorios y territorialidad. 1. Intereses de política legislativa. 2. La dialéctica entre el ius soli y el ius sanguinis. 3. La dialéctica entre la ley nacional y la ley del domicilio. III. Movimientos migratorios y...

  13. Mikrobiološka kvaliteta i biokemijske promjene u svježem, mekanom kiselom siru Xinotyri, pripravljenom od svježeg ili pasteriziranog kozjeg mlijeka

    OpenAIRE

    Pappa, Eleni C.; Bontinis, Thomas G.; Tasioula-Margari, Maria; Samelis, John

    2017-01-01

    U radu su ispitani sljedeći parametri: mikrobiološka kakvoća, promjene u glavnim fizikalno-kemijskim značajkama i tijeku proteolize i lipolize te udjelu hlapljivih sastojaka u mekanom siru Xinotyri, tradicionalnom grčkom kiselom siru (pH vrijednosti od približno 4,4; udjela vlage od 65 % i udjela soli od 1 %), pripravljenom od svježeg ili pasteriziranog kozjeg mlijeka bez dodatka starter-kultura, i to tijekom 60 dana aerobnog skladištenja pri 4 °C. Nisu pronađene statistički bitne razlike u u...

  14. Haiti and Mozambique: Postcolonial Literature in the Context of Combined and Uneven Development

    OpenAIRE

    Sousa, Sandra

    2017-01-01

    In this essay, I compare two narratives from different nations, Haiti and Mozambique, in order to analyze intersections between the postcolonial contexts in which each fiction is embedded. Two theoretical perspectives inform my reading of Nadine Pinede’s “Departure Lounge” (2011) and João Paulo Borges Coelho’s Campo de trânsito (2007). I draw first on Vivek Chibber’s argument that postcolonial studies fail to provide an adequate basis for a theory of human rights and a practice of global soli...

  15. Cyber threat impact assessment and analysis for space vehicle architectures

    Science.gov (United States)

    McGraw, Robert M.; Fowler, Mark J.; Umphress, David; MacDonald, Richard A.

    2014-06-01

    This paper covers research into an assessment of potential impacts and techniques to detect and mitigate cyber attacks that affect the networks and control systems of space vehicles. Such systems, if subverted by malicious insiders, external hackers and/or supply chain threats, can be controlled in a manner to cause physical damage to the space platforms. Similar attacks on Earth-borne cyber physical systems include the Shamoon, Duqu, Flame and Stuxnet exploits. These have been used to bring down foreign power generation and refining systems. This paper discusses the potential impacts of similar cyber attacks on space-based platforms through the use of simulation models, including custom models developed in Python using SimPy and commercial SATCOM analysis tools, as an example STK/SOLIS. The paper discusses the architecture and fidelity of the simulation model that has been developed for performing the impact assessment. The paper walks through the application of an attack vector at the subsystem level and how it affects the control and orientation of the space vehicle. SimPy is used to model and extract raw impact data at the bus level, while STK/SOLIS is used to extract raw impact data at the subsystem level and to visually display the effect on the physical plant of the space vehicle.

  16. The role of measured data in a free natural gas market

    International Nuclear Information System (INIS)

    Ter Horst, G.J.P.; Fransen, T.

    2000-01-01

    As from 2002 medium-scale customers connected to the distribution network of the regional natural gas distribution companies will be able to purchase their gas from third parties. In order to calculate the energy (gas) transmission, distribution and supply costs, it is necessary to measure and record the offtakes of all the customers with freedom of choice on an hourly basis. The Dutch natural gas trading company Gasunie usually carries out these measurements for the present 350 medium-scale customers, but for the 14,000 customers by 2002 a different solution probably must be chosen. This is because most offtakes do not have any provision for measuring consumption on an hourly basis. Following the electricity market, offtake profiles will be prepared for most customers. If the parties cannot reach agreement on those profiles, expensive measuring equipment has to be installed on site. The Standard Online Information Server (Solis) is used in a project to transfer the data measured online from a remote customer to the electricity supplier. Solis will also be used for transferring gas data. The Dutch natural gas research institute Gastec has carried out a definition study into the use of gas consumption profiles for assessing the gas balance. Gastec and KEMA (research institute for the Dutch electric power companies) will jointly further develop this gas consumption model for both the gas and electricity market

  17. High-Throughput Sequencing of MicroRNAs in Adenovirus Type 3 Infected Human Laryngeal Epithelial Cells

    Directory of Open Access Journals (Sweden)

    Yuhua Qi

    2010-01-01

    Full Text Available Adenovirus infection can cause various illnesses depending on the infecting serotype, such as gastroenteritis, conjunctivitis, cystitis, and rash illness, but the infection mechanism is still unknown. MicroRNAs (miRNA have been reported to play essential roles in cell proliferation, cell differentiation, and pathogenesis of human diseases including viral infections. We analyzed the miRNA expression profiles from adenovirus type 3 (AD3 infected Human laryngeal epithelial (Hep2 cells using a SOLiD deep sequencing. 492 precursor miRNAs were identified in the AD3 infected Hep2 cells, and 540 precursor miRNAs were identified in the control. A total of 44 miRNAs demonstrated high expression and 36 miRNAs showed lower expression in the AD3 infected cells than control. The biogenesis of miRNAs has been analyzed, and some of the SOLiD results were confirmed by Quantitative PCR analysis. The present studies may provide a useful clue for the biological function research into AD3 infection.

  18. MALINA: a web service for visual analytics of human gut microbiota whole-genome metagenomic reads.

    Science.gov (United States)

    Tyakht, Alexander V; Popenko, Anna S; Belenikin, Maxim S; Altukhov, Ilya A; Pavlenko, Alexander V; Kostryukova, Elena S; Selezneva, Oksana V; Larin, Andrei K; Karpova, Irina Y; Alexeev, Dmitry G

    2012-12-07

    MALINA is a web service for bioinformatic analysis of whole-genome metagenomic data obtained from human gut microbiota sequencing. As input data, it accepts metagenomic reads of various sequencing technologies, including long reads (such as Sanger and 454 sequencing) and next-generation (including SOLiD and Illumina). It is the first metagenomic web service that is capable of processing SOLiD color-space reads, to authors' knowledge. The web service allows phylogenetic and functional profiling of metagenomic samples using coverage depth resulting from the alignment of the reads to the catalogue of reference sequences which are built into the pipeline and contain prevalent microbial genomes and genes of human gut microbiota. The obtained metagenomic composition vectors are processed by the statistical analysis and visualization module containing methods for clustering, dimension reduction and group comparison. Additionally, the MALINA database includes vectors of bacterial and functional composition for human gut microbiota samples from a large number of existing studies allowing their comparative analysis together with user samples, namely datasets from Russian Metagenome project, MetaHIT and Human Microbiome Project (downloaded from http://hmpdacc.org). MALINA is made freely available on the web at http://malina.metagenome.ru. The website is implemented in JavaScript (using Ext JS), Microsoft .NET Framework, MS SQL, Python, with all major browsers supported.

  19. Functional Categorization of Transcriptome in the Species Symphysodon aequifasciatus Pellegrin 1904 (Perciformes: Cichlidae) Exposed to Benzo[a]pyrene and Phenanthrene

    Science.gov (United States)

    Lemgruber, Renato de Souza Pinto; Marshall, Nislanha Ana dos Anjos; Ghelfi, Andrea; Fagundes, Daniel Barros; Val, Adalberto Luis

    2013-01-01

    This study aims to evaluate the transcriptome alterations, through cDNA libraries, associated with the combined effects of two PAHs, benzo[a]pyrene (0.5 µg/L) and phenanthrene (50 µg/L), present in crude oil, on specimens of Symphysodon aequifasciatus (discus fish) after 48 h of exposure. The cDNA libraries were constructed according to the SOLiD™ SAGE™ protocol for sequencing in the SOLiD v.3 Plus sequencer. The results were analyzed by bioinformatics and differentially expressed genes were categorized using the gene ontology program. The functional categories (terms) found in the gene ontology and the gene network generated using STRING software were used to predict the adverse effects of benzo[a]pyrene and phenanthrene in the liver. In the present study, 27,127 genes (compared to Danio rerio database) were identified. Considering only those genes with a p-value less than or equal to 0.05 and greater than or equal to two-fold change in expression across libraries, we found 804 genes, 438 down-regulated (54%) and 366 up-regulated (46%), in the experimental group compared to the control. Out of this total, 327 genes were successfully categorized, 174 down-regulated and 153 up-regulated, using gene ontology. Using String, the gene network was composed by 199 nodes, 124 of them resulting in 274 interactions. The results showed that even an acute exposure of 48 h caused metabolic change in response to environmental contaminants, resulting in changes of cell integrity, in oxidation-reduction processes, in the immune response and disturbances of intracellular signaling of discus fish. Also the gene network has showed no central interplay cluster, exhibiting instead interconnected clusters interactions and connected sub-networks. These findings highlight that even an acute sublethal exposure of PAHs can cause metabolism changes that may affect survival of discus. Our findings using SOLiD coupled with SAGE-method resulted in a powerful and reliable means for gene

  20. Micro tectonic milonitas analysis in the extreme south of the Sarandi del Yi shear zone: Kinematics and deformation conditions

    International Nuclear Information System (INIS)

    Oyhantçabal, P; Suarez, I; Seluchi, N; Martinez, X.

    2010-01-01

    The Shear Zone divides Sarandi del Yi Craton River Plate in Piedra Alta and Nico Perez land . The southern end of this zone extends to north - south from the vicinity of the town of Minas to Punta Solis. The predominant lithology of the study area consists of a granitic mylonite with abundant muscovite and biotite. Structural data of foliation , stretching lineation and kinematic indicators were surveyed .Petrographic analysis shows that quartz is presented as ribbons polycrystalline product subgrain rotation recrystallization and grain boundary migration . Feldspar porphyroclasts are partially recrystallized in developing type structures c ore and mantle . Kinematic indicators such as sigma porphyroclasts , mica fish and oblique foliation defined consistently sinistral sense . The presence of stable and mirmequitas in the plane of biotite foliation along the microstructures described in quartz and feldspar , can be inferred temperature conditions between 450 ° C and 550° C during deformation

  1. Fare astronomia con piccoli telescopi

    CERN Document Server

    Gainer, Michael K

    2007-01-01

    Non sono necessariamente richiesti strumenti mastodontici per produrre risultati scientificamente validi nel campo dell’astronomia. Anche l’astrofilo dotato di un piccolo telescopio, con un diametro di soli 8-9 cm, può contribuire alla scienza del cielo realizzando utili osservazioni del Sole, della Luna, dei pianeti, delle comete, degli asteroidi, delle stelle doppie o variabili, delle nebulose e degli ammassi stellari. Il manuale di M.K. Gainer spiega quale sia la dotazione minima (un piccolo telescopio, un computer, una semplice fotocamera digitale), come utilizzarla, e quali siano le tecniche appropriate da adottare nelle osservazioni. Offre inoltre schemi per interpretare e ridurre i dati raccolti, nonché schede da compilare e da spedire ai centri di raccolta internazionali. Questo libro è il passaporto grazie al quale l’astrofilo può entrare a pieno titolo nel mondo affascinante della scienza astronomica.

  2. Un'estrema solitudine la vita e l'opera di Werner Heisenberg

    CERN Document Server

    Cassidy, David C

    1996-01-01

    Il genio di Werner Heisenberg attraversa l'orizzonte della fisica del nostro secolo come una meteora. Testimoniano della fecondità e dell'originalità del suo pensiero non solo il Nobel che gli fu assegnato a soli 32 anni, ma soprattutto i decisivi impulsi da lui dati alla fisica quantistica, alla teoria delle particelle elementari, alla teoria del nucleo. Si deve a Heisenberg quel "principio di indeterminazione" che ha rivoluzionato non solo il corso della fisica ma il modo di concepire la posizione dell'uomo nell'universo. L'interesse del libro, però, vuole andare oltre la fisica, giacché il curriculum del "ragazzo di campagna dei biondi capelli" rispecchia in forma emblematica l'ambiguo rapporto della scienza col potere.

  3. Evaluation of a method to measure water content in porous media by employing ultrasound

    Directory of Open Access Journals (Sweden)

    Luis Leonardo Sáenz Cruz

    2003-01-01

    Full Text Available A method to measure water content in porous media, such as solis and grains, was developed as a real time nondestructive test. The method was based on piezoelectric ultrasonic transducers as a sensor system. Transmiters and receivers was developed to administrate the sensors system and ultrasonic signal. Transmiters and receivers are placed facing each other and located inside the porous media 10 cm apart. The method was evaluated in two porous meda, namely a column 30 cm coarse sand and a paddy rice variety Fedearroz 50, in order to evaluate the sensors system performance in two different porous media with different water holder capacity. Tools were developed for data acquisition, capacity of 16 analog signal, 12 bits resolution. Electronic circuits, C++ OPP programming and Matlab were used. The results showed a monotonically increment of millivolts as a response of the transducer as the water content was decreasing

  4. A Novel Evolutionary Algorithm Inspired by Beans Dispersal

    Directory of Open Access Journals (Sweden)

    Xiaoming Zhang

    2013-02-01

    Full Text Available Inspired by the transmission of beans in nature, a novel evolutionary algorithm-Bean Optimization Algorithm (BOA is proposed in this paper. BOA is mainly based on the normal distribution which is an important continuous probability distribution of quantitative phenomena. Through simulating the self-adaptive phenomena of plant, BOA is designed for solving continuous optimization problems. We also analyze the global convergence of BOA by using the Solis and Wetsarsquo; research results. The conclusion is that BOA can converge to the global optimization solution with probability one. In order to validate its effectiveness, BOA is tested against benchmark functions. And its performance is also compared with that of particle swarm optimization (PSO algorithm. The experimental results show that BOA has competitive performance to PSO in terms of accuracy and convergence speed on the explored tests and stands out as a promising alternative to existing optimization methods for engineering designs or applications.

  5. Large CO 2 and CH 4 emissions from polygonal tundra during spring thaw in northern Alaska: Spring Pulse Emission

    Energy Technology Data Exchange (ETDEWEB)

    Raz-Yaseef, Naama [Climate and Ecosystem Sciences Division, Lawrence Berkeley National Laboratory, Berkeley California USA; Torn, Margaret S. [Climate and Ecosystem Sciences Division, Lawrence Berkeley National Laboratory, Berkeley California USA; Energy and Resources Group, University of California, Berkeley California USA; Wu, Yuxin [Climate and Ecosystem Sciences Division, Lawrence Berkeley National Laboratory, Berkeley California USA; Billesbach, Dave P. [Biological Systems Engineering Department, University of Nebraska-Lincoln, Lincoln Nebraska USA; Liljedahl, Anna K. [Water and Environmental Research Center, University of Alaska Fairbanks, Fairbanks Alaska USA; Kneafsey, Timothy J. [Climate and Ecosystem Sciences Division, Lawrence Berkeley National Laboratory, Berkeley California USA; Romanovsky, Vladimir E. [Geophysical Institute, University of Alaska Fairbanks, Fairbanks Alaska USA; Cook, David R. [Environmental Science Division, Argonne National Laboratory, Lemont Illinois USA; Wullschleger, Stan D. [Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge Tennessee USA

    2017-01-10

    The few prethaw observations of tundra carbon fluxes suggest that there may be large spring releases, but little Is lmown about the scale and underlying mechanisms of this phenomenon. To address these questions, we combined ecosystem eddy flux measurements from two towers near Barrow, Alaska, with mechanistic soil-core thawing experiment During a 2week period prior to snowmelt In 2014, large fluxes were measured, reducing net summer uptake of CO2 by 46% and adding 6% to cumulative CH4 emissions. Emission pulses were linked to unique rain-on-snow events enhancing soli cracking. Controlled laboratory experiment revealed that as surface Ice thaws, an immediate, large pulse of trapped gases Is emitted. These results suggest that the Arctic C02 and CH4 spring pulse is a delayed release of biogenic gas production from the previous fall and that the pulse can be large enough to offset a significant fraction of the moderate Arctic tundra carbon sink.

  6. Improvement in Shrimp Hatchery Procedures for Toxicity Tests

    International Nuclear Information System (INIS)

    Nor Azizah Marsiddi; Fazliana Mohd Saaya; Anee Suryani Sued

    2015-01-01

    Toxicity testing of brine shrimp Artemia salina Brine shrimp lethality assay is a screening test to determine half the dose mortality (LC50) for its shrimp given certain herbal extract at a concentration tested. The shrimp child mortality half a dose indicator to determine level of toxicity before further testing done on animal cell culture and animal experiments also on the mouse. The use of new hardware, namely Artemio 1 has increased its shrimp production at a rate that more and faster than the use of the black box hatching previously taken from the method by Solis, 1993. brine shrimp eggs from Artemio mix also easier to use because it contains egg and sea salt have been ready mixed for use in experiments. In conclusion, this method improvements help increase the number of offspring produced shrimp and produce experimental method easier than previous methods. (author)

  7. Microlunatus cavernae sp. nov., a novel actinobacterium isolated from Alu ancient cave, Yunnan, South-West China.

    Science.gov (United States)

    Cheng, Juan; Chen, Wei; Huo-Zhang, Bing; Nimaichand, Salam; Zhou, En-Min; Lu, Xin-Hua; Klenk, Hans-Peter; Li, Wen-Jun

    2013-07-01

    A Gram-positive, coccoid, non-endospore-forming actinobacterium, designated YIM C01117(T), was isolated from a soil sample collected from Alu ancient cave, Yunnan province, south-west China. Based on the 16S rRNA gene sequence analysis, strain YIM C01117(T) was shown to belong to the genus Microlunatus, with highest sequence similarity of 97.4 % to Microlunatus soli DSM 21800(T). The whole genomic DNA relatedness as shown by the DNA-DNA hybridization study between YIM C01117(T) and M. soli DSM 21800(T) had a low value (47 ± 2 %). Strain YIM C01117(T) was determined to contain LL-diaminopimelic acid with Gly, Glu and Ala amino acids (A3γ' type) in the cell wall. Whole-cell hydrolysates were found to contain glucose, galactose, mannose and ribose. The major polar lipids were determined to be phosphatidylglycerol and diphosphatidylglycerol. The predominant menaquinone system present is MK-9(H4), while the major fatty acids were identified to be anteiso-C15:0 (24.1 %), iso-C16:0 (22.3 %) and iso-C15:0 (11.4 %). The G+C content of the genomic DNA was determined to be 65.9 mol%. The chemotaxonomic and genotypic data support the affiliation of the strain YIM C01117(T) to the genus Microlunatus. The results of physiological and biochemical tests allow strain YIM C01117(T) to be differentiated phenotypically from recognized Microlunatus species. Strain YIM C01117(T) is therefore considered to represent a novel species of the genus Microlunatus, for which the name Microlunatus cavernae sp. nov. is proposed. The type strain is YIM C01117(T) (= DSM 26248(T) = JCM 18536(T)).

  8. HIV-1 Tropism Determines Different Mutation Profiles in Proviral DNA.

    Science.gov (United States)

    Nascimento-Brito, Sieberth; Paulo Zukurov, Jean; Maricato, Juliana T; Volpini, Angela C; Salim, Anna Christina M; Araújo, Flávio M G; Coimbra, Roney S; Oliveira, Guilherme C; Antoneli, Fernando; Janini, Luiz Mário R

    2015-01-01

    In order to establish new infections HIV-1 particles need to attach to receptors expressed on the cellular surface. HIV-1 particles interact with a cell membrane receptor known as CD4 and subsequently with another cell membrane molecule known as a co-receptor. Two major different co-receptors have been identified: C-C chemokine Receptor type 5 (CCR5) and C-X-C chemokine Receptor type 4 (CXCR4) Previous reports have demonstrated cellular modifications upon HIV-1 binding to its co-receptors including gene expression modulations. Here we investigated the effect of viral binding to either CCR5 or CXCR4 co-receptors on viral diversity after a single round of reverse transcription. CCR5 and CXCR4 pseudotyped viruses were used to infect non-stimulated and stimulated PBMCs and purified CD4 positive cells. We adopted the SOLiD methodology to sequence virtually the entire proviral DNA from all experimental infections. Infections with CCR5 and CXCR4 pseudotyped virus resulted in different patterns of genetic diversification. CCR5 virus infections produced extensive proviral diversity while in CXCR4 infections a more localized substitution process was observed. In addition, we present pioneering results of a recently developed method for the analysis of SOLiD generated sequencing data applicable to the study of viral quasi-species. Our findings demonstrate the feasibility of viral quasi-species evaluation by NGS methodologies. We presented for the first time strong evidence for a host cell driving mechanism acting on the HIV-1 genetic variability under the control of co-receptor stimulation. Additional investigations are needed to further clarify this question, which is relevant to viral diversification process and consequent disease progression.

  9. HIV-1 Tropism Determines Different Mutation Profiles in Proviral DNA.

    Directory of Open Access Journals (Sweden)

    Sieberth Nascimento-Brito

    Full Text Available In order to establish new infections HIV-1 particles need to attach to receptors expressed on the cellular surface. HIV-1 particles interact with a cell membrane receptor known as CD4 and subsequently with another cell membrane molecule known as a co-receptor. Two major different co-receptors have been identified: C-C chemokine Receptor type 5 (CCR5 and C-X-C chemokine Receptor type 4 (CXCR4 Previous reports have demonstrated cellular modifications upon HIV-1 binding to its co-receptors including gene expression modulations. Here we investigated the effect of viral binding to either CCR5 or CXCR4 co-receptors on viral diversity after a single round of reverse transcription. CCR5 and CXCR4 pseudotyped viruses were used to infect non-stimulated and stimulated PBMCs and purified CD4 positive cells. We adopted the SOLiD methodology to sequence virtually the entire proviral DNA from all experimental infections. Infections with CCR5 and CXCR4 pseudotyped virus resulted in different patterns of genetic diversification. CCR5 virus infections produced extensive proviral diversity while in CXCR4 infections a more localized substitution process was observed. In addition, we present pioneering results of a recently developed method for the analysis of SOLiD generated sequencing data applicable to the study of viral quasi-species. Our findings demonstrate the feasibility of viral quasi-species evaluation by NGS methodologies. We presented for the first time strong evidence for a host cell driving mechanism acting on the HIV-1 genetic variability under the control of co-receptor stimulation. Additional investigations are needed to further clarify this question, which is relevant to viral diversification process and consequent disease progression.

  10. Life history and systematics of Albusambia elaphoglossumae (Lepidoptera:Crambidae: A new genus and species of musotimine with leaf-mining biology from Costa Rica

    Directory of Open Access Journals (Sweden)

    M Alma Solis

    2005-09-01

    Full Text Available Albusambia elaphoglossumae Solis &Davis,a new genus and species,is described.It was discov- ered mining the fronds of the fern Elaphoglossum conspersum in Costa Rica (San José and Cartago Provinces, at elevations of 2300-3100 m.The type series was obtained by rearing of the immature stages in laboratory. The adult is defined by unique genital characters,and the pupa with a medial depression on the vertex and with two anterolateral horn-like structures on the prothorax.The larva is a gregarious leaf miner with its body flat- tened dorsoventrally and head prognathous; morphological adaptations to its leaf-mining habit are new to the Musotiminae.Fern-feeding musotimines are important to the discovery of new biological control agents for invasive ferns.Rev.Biol.Trop.53(3-4:487-501.Epub 2005 Oct 3.Se describen un género y especie nuevos de Musotiminae,Albusambia elaphoglossumae Solis and Davis,de Costa Rica.Esta especie mina las frondas del helecho Elaphoglossum conspersum .La serie tipo se obtuvo mediante la recolección de las minas y mediante crianza en laboratorio.El adulto se define por caracteres específicos en el aparato genital;la pupa se caracteriza por una depresión media en el vértex y por dos estructuras anterolaterales en forma de cuernos en el protórax.La larva es un minador gregario de la fronda,con su cuerpo aplanado dorsoventralmente y su cabeza prognata;ambas adaptaciones morfológicas para minar frondas (vistas por primera vez en Musotiminae. Actualmente,Musotiminae es de alta prioridad en la búsqueda de nuevos agentes para el control biológico de helechos invasores.

  11. Effector identification in the lettuce downy mildew Bremia lactucae by massively parallel transcriptome sequencing.

    Science.gov (United States)

    Stassen, Joost H M; Seidl, Michael F; Vergeer, Pim W J; Nijman, Isaäc J; Snel, Berend; Cuppen, Edwin; Van den Ackerveken, Guido

    2012-09-01

    Lettuce downy mildew (Bremia lactucae) is a rapidly adapting oomycete pathogen affecting commercial lettuce cultivation. Oomycetes are known to use a diverse arsenal of secreted proteins (effectors) to manipulate their hosts. Two classes of effector are known to be translocated by the host: the RXLRs and Crinklers. To gain insight into the repertoire of effectors used by B. lactucae to manipulate its host, we performed massively parallel sequencing of cDNA derived from B. lactucae spores and infected lettuce (Lactuca sativa) seedlings. From over 2.3 million 454 GS FLX reads, 59 618 contigs were assembled representing both plant and pathogen transcripts. Of these, 19 663 contigs were determined to be of B. lactucae origin as they matched pathogen genome sequences (SOLiD) that were obtained from >270 million reads of spore-derived genomic DNA. After correction of cDNA sequencing errors with SOLiD data, translation into protein models and filtering, 16 372 protein models remained, 1023 of which were predicted to be secreted. This secretome included elicitins, necrosis and ethylene-inducing peptide 1-like proteins, glucanase inhibitors and lectins, and was enriched in cysteine-rich proteins. Candidate host-translocated effectors included 78 protein models with RXLR effector features. In addition, we found indications for an unknown number of Crinkler-like sequences. Similarity clustering of secreted proteins revealed additional effector candidates. We provide a first look at the transcriptome of B. lactucae and its encoded effector arsenal. © 2012 THE AUTHORS. MOLECULAR PLANT PATHOLOGY © 2012 BSPP AND BLACKWELL PUBLISHING LTD.

  12. Bacillus cucumis

    Science.gov (United States)

    Kämpfer, Peter; Busse, Hans-Jürgen; Glaeser, Stefanie P; Kloepper, Joseph W; Hu, Chia-Hui; McInroy, John A

    2016-02-01

    A facultative anaerobic, Gram-positive staining, endospore-forming bacterium, isolated from the rhizosphere of cucumber ( Cucumis sativus ), was taxonomically investigated. Based on 16S rRNA gene sequence similarity comparisons, strain AP-6 T clustered together with other species of the genus Bacillus and showed highest similarities with Bacillus drentensis LMG 21831 T (99.1 %), Bacillus vireti LMG 21834 T (98.7 %) and Bacillus soli LMG 21838 T (98.5 %). The 16S rRNA gene sequence similarity to the sequences of the type strains of other species of the genus Bacillus was 98.5 % or less. Chemotaxonomic features supported the grouping of the strain in the genus Bacillus ; for example, the major fatty acids were anteiso-C 15 : 0 , iso-C 15 : 0 and C 16 : 0 , the polar lipid profile contained the major components diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and an unidentified glycolipid, the major quinone was menaquinone MK-7 and the major compound in the polyamine pattern was spermidine. Additionally, DNA-DNA hybridization with B. drentensis LMG 21831 T , B. vireti LMG 21834 T and B. soli LMG 21838 T resulted in relatedness values that were clearly below 70 %. Physiological and biochemical test results were also different from those of the most closely related species. As a consequence, AP-6 T represents a novel species of the genus Bacillus , for which the name Bacillus cucumis sp. nov. is proposed, with AP-6 T ( = CIP 110974 T  = CCM 8651 T ) as the type strain.

  13. SDHA loss of function mutations in a subset of young adult wild-type gastrointestinal stromal tumors

    International Nuclear Information System (INIS)

    Italiano, Antoine; Chen, Chun-Liang; Sung, Yun-Shao; Singer, Samuel; DeMatteo, Ronald P; LaQuaglia, Michael P; Besmer, Peter; Socci, Nicholas; Antonescu, Cristina R

    2012-01-01

    A subset of KIT/PDGFRA wild-type gastrointestinal stromal tumors (WT GIST) have been associated with alteration of the succinate dehydrogenase (SDH) complex II function. A recent report identified four non-syndromic, KIT/PDGFRA WT GIST harboring compound heterozygous or homozygous mutations in SDHA encoding the main subunit of the SDH complex II. Next generation sequencing was applied on five pediatric and one young adult WT GIST, by whole exome capture and SOLiD 3-plus system sequencing. The putative mutations were first confirmed by Sanger sequencing and then screened on a larger panel of 11 pediatric and young adult WT GIST, including 5 in the context of Carney triad. A germline p.Arg31X nonsense SDHA mutation was identified in one of the six cases tested by SOLiD platform. An additional p.D38V missense mutation in SDHA exon 2 was identified by Sanger sequencing in the extended KIT/PDGFRA WT GIST patients cohort. Western blotting showed loss of SDHA expression in the two cases harboring SDHA mutations, while expression being retained in the other WT GIST tumors. Results were further confirmed by immunohistochemistry for both SDHA and SDHB, which showed a concurrent loss of expression of both proteins in SDHA-mutant lesions, while the remaining WT tumors showed only loss of SDHB expression. Germline and/or somatic aberrations of SDHA occur in a small subset of KIT/PDGFRA WT GISTs, outside the Carney’s triad and are associated with loss of both SDHA and SDHB protein expression. Mutations of the SDH complex II are more particularly associated with KIT/PDGFRA WT GIST occurring in young adults. Although pediatric GIST consistently display alterations of SDHB protein expression, further molecular studies are needed to identify the crucial genes involved in their tumorigenesis

  14. In vivo translocation and toxicity of multi-walled carbon nanotubes are regulated by microRNAs

    Science.gov (United States)

    Zhao, Yunli; Wu, Qiuli; Li, Yiping; Nouara, Abdelli; Jia, Ruhan; Wang, Dayong

    2014-03-01

    We employed an in vivo Caenorhabditis elegans assay system to perform SOLiD sequencing analysis to identify the possible microRNA (miRNA) targets of multi-walled carbon nanotubes (MWCNTs). Bioinformatics analysis on targeted genes for the identified dysregulated miRNAs in MWCNT exposed nematodes demonstrates their involvement in many aspects of biological processes. We used loss-of-function mutants for the identified dysregulated miRNAs to perform toxicity assessment by evaluating functions of primary and secondary targeted organs, and found the miRNA mutants with susceptible or resistant property towards MWCNT toxicity. Both the physiological state of the intestine and defecation behavior were involved in the control of the susceptible or resistant property occurrence for specific miRNA mutants towards MWCNT toxicity. This work provides the molecular basis at the miRNA level for future chemical design to reduce the nanotoxicity of MWCNTs and further elucidation of the related toxicological mechanism.We employed an in vivo Caenorhabditis elegans assay system to perform SOLiD sequencing analysis to identify the possible microRNA (miRNA) targets of multi-walled carbon nanotubes (MWCNTs). Bioinformatics analysis on targeted genes for the identified dysregulated miRNAs in MWCNT exposed nematodes demonstrates their involvement in many aspects of biological processes. We used loss-of-function mutants for the identified dysregulated miRNAs to perform toxicity assessment by evaluating functions of primary and secondary targeted organs, and found the miRNA mutants with susceptible or resistant property towards MWCNT toxicity. Both the physiological state of the intestine and defecation behavior were involved in the control of the susceptible or resistant property occurrence for specific miRNA mutants towards MWCNT toxicity. This work provides the molecular basis at the miRNA level for future chemical design to reduce the nanotoxicity of MWCNTs and further elucidation of the

  15. EFFECT OF POLARIMETRIC NOISE ON THE ESTIMATION OF TWIST AND MAGNETIC ENERGY OF FORCE-FREE FIELDS

    International Nuclear Information System (INIS)

    Tiwari, Sanjiv Kumar; Venkatakrishnan, P.; Gosain, Sanjay; Joshi, Jayant

    2009-01-01

    The force-free parameter α, also known as helicity parameter or twist parameter, bears the same sign as the magnetic helicity under some restrictive conditions. The single global value of α for a whole active region gives the degree of twist per unit axial length. We investigate the effect of polarimetric noise on the calculation of global α value and magnetic energy of an analytical bipole. The analytical bipole has been generated using the force-free field approximation with a known value of constant α and magnetic energy. The magnetic parameters obtained from the analytical bipole are used to generate Stokes profiles from the Unno-Rachkovsky solutions for polarized radiative transfer equations. Then we add random noise of the order of 10 -3 of the continuum intensity (I c ) in these profiles to simulate the real profiles obtained by modern spectropolarimeters such as Hinode (SOT/SP), SVM (USO), ASP, DLSP, POLIS, and SOLIS etc. These noisy profiles are then inverted using a Milne-Eddington inversion code to retrieve the magnetic parameters. Hundred realizations of this process of adding random noise and polarimetric inversion is repeated to study the distribution of error in global α and magnetic energy values. The results show that (1) the sign of α is not influenced by polarimetric noise and very accurate values of global twist can be calculated, and (2) accurate estimation of magnetic energy with uncertainty as low as 0.5% is possible under the force-free condition.

  16. Undeserving mothers? Shifting rationalities in the maternal healthcare of undocumented Nicaraguan migrants in Costa Rica.

    Science.gov (United States)

    Dos Santos, Sara Leon Spesny

    2015-01-01

    The case of Nicaraguan migrants in Costa Rica is emblematic of the issues that immigration generates in host countries. Undocumented Nicaraguan women seeking maternal care constitute a key challenge to the universal coverage of Costa Rica's health system. Can the long-standing commitment to universality, solidarity and equality expressed in the legislation be translated into practice? Discourses of health professionals in Costa Rica reveal a contradiction between merit and prejudice in prenatal and delivery care. Here, I present qualitative research based on semi-structured interviews with physicians and nurses at a Costa Rican National Hospital. The data show that migrant women, rejected from primary care, do find help in emergency services, but not without difficulties, as they must engage in individual negotiations centred on their bodies. The discourses of health providers reflect an ambivalence between the perceived undeservingness of undocumented migrant women and the medical realisation that two lives are at risk. While the foetus often evokes compassion, the mother commonly provokes repression, as specific and shifting rationalities reflect new moral regimes that are applied to this population. Women are perceived as being 'illegal', 'immoral' and 'irrational', and the baby, although legally Costa Rican due to jus solis policy, embodies 'the other'. Ultimately, otherness frames perceptions of deservingness of maternal care for undocumented migrant women in Costa Rica.

  17. Maximum power analysis of photovoltaic module in Ramadi city

    Energy Technology Data Exchange (ETDEWEB)

    Shahatha Salim, Majid; Mohammed Najim, Jassim [College of Science, University of Anbar (Iraq); Mohammed Salih, Salih [Renewable Energy Research Center, University of Anbar (Iraq)

    2013-07-01

    Performance of photovoltaic (PV) module is greatly dependent on the solar irradiance, operating temperature, and shading. Solar irradiance can have a significant impact on power output of PV module and energy yield. In this paper, a maximum PV power which can be obtain in Ramadi city (100km west of Baghdad) is practically analyzed. The analysis is based on real irradiance values obtained as the first time by using Soly2 sun tracker device. Proper and adequate information on solar radiation and its components at a given location is very essential in the design of solar energy systems. The solar irradiance data in Ramadi city were analyzed based on the first three months of 2013. The solar irradiance data are measured on earth's surface in the campus area of Anbar University. Actual average data readings were taken from the data logger of sun tracker system, which sets to save the average readings for each two minutes and based on reading in each one second. The data are analyzed from January to the end of March-2013. Maximum daily readings and monthly average readings of solar irradiance have been analyzed to optimize the output of photovoltaic solar modules. The results show that the system sizing of PV can be reduced by 12.5% if a tracking system is used instead of fixed orientation of PV modules.

  18. Management of High-Throughput DNA Sequencing Projects: Alpheus.

    Science.gov (United States)

    Miller, Neil A; Kingsmore, Stephen F; Farmer, Andrew; Langley, Raymond J; Mudge, Joann; Crow, John A; Gonzalez, Alvaro J; Schilkey, Faye D; Kim, Ryan J; van Velkinburgh, Jennifer; May, Gregory D; Black, C Forrest; Myers, M Kathy; Utsey, John P; Frost, Nicholas S; Sugarbaker, David J; Bueno, Raphael; Gullans, Stephen R; Baxter, Susan M; Day, Steve W; Retzel, Ernest F

    2008-12-26

    High-throughput DNA sequencing has enabled systems biology to begin to address areas in health, agricultural and basic biological research. Concomitant with the opportunities is an absolute necessity to manage significant volumes of high-dimensional and inter-related data and analysis. Alpheus is an analysis pipeline, database and visualization software for use with massively parallel DNA sequencing technologies that feature multi-gigabase throughput characterized by relatively short reads, such as Illumina-Solexa (sequencing-by-synthesis), Roche-454 (pyrosequencing) and Applied Biosystem's SOLiD (sequencing-by-ligation). Alpheus enables alignment to reference sequence(s), detection of variants and enumeration of sequence abundance, including expression levels in transcriptome sequence. Alpheus is able to detect several types of variants, including non-synonymous and synonymous single nucleotide polymorphisms (SNPs), insertions/deletions (indels), premature stop codons, and splice isoforms. Variant detection is aided by the ability to filter variant calls based on consistency, expected allele frequency, sequence quality, coverage, and variant type in order to minimize false positives while maximizing the identification of true positives. Alpheus also enables comparisons of genes with variants between cases and controls or bulk segregant pools. Sequence-based differential expression comparisons can be developed, with data export to SAS JMP Genomics for statistical analysis.

  19. The effects of short-term computerized speech-in-noise training on postlingually deafened adult cochlear implant recipients.

    Science.gov (United States)

    Ingvalson, Erin M; Lee, Brienne; Fiebig, Pamela; Wong, Patrick C M

    2013-02-01

    To determine if short-term computerized speech-in-noise training can produce significant improvements in speech-in-noise perception by cochlear implant (CI) recipients on standardized audiologic testing measures. Five adult postlingually deafened CI recipients participated in 4 speech-in-noise training sessions using the Seeing and Hearing Speech program (Sensimetrics; Malden, MA). Each participant completed lessons concentrating on consonant and vowel recognition at word, phrase, and sentence levels. Speech-in-noise abilities were assessed using the QuickSIN (Killion, Niquette, Gudmundsen, Revit, & Banerjee, 2004) and the Hearing in Noise Test (HINT ( Nilsson, Soli & Sullivan, 1994)). All listeners significantly improved key word identification on the HINT after training, albeit only at the most favorable signal-to-noise ratio (SNR). Listeners also showed a significant reduction in the degree of SNR loss on the QuickSIN after training. Short-term speech-in-noise training may improve speech-in-noise perception in postlingually deafened adult CI recipients.

  20. Microbial succession and metabolite changes during long-term storage of Kimchi.

    Science.gov (United States)

    Jeong, Sang Hyeon; Lee, Se Hee; Jung, Ji Young; Choi, Eun Jin; Jeon, Che Ok

    2013-05-01

    Kimchi is often stored for a long period of time for a diet during the winter season because it is an essential side dish for Korean meals. In this study pH, abundance of bacteria and yeasts, bacterial communities, and metabolites were monitored periodically to investigate the fermentation process of kimchi for 120 d. Bacterial abundance increased quickly with a pH decrease after an initial pH increase during the early fermentation period. After 20 d, pH values became relatively stable and free sugars were maintained at relatively constant levels, indicating that kimchi fermentation by lactic acid bacteria (LAB) was almost completed. After that time, a decrease in bacterial abundance and a growth in Saccharomyces occurred concurrently with increased free sugar consumption and production of glycerol and ethanol. Finally, after 100 d, the growth of Candida was observed. Community analysis using pyrosequencing revealed that diverse LAB including Leuconostoc citreum, Leuconostoc holzapfelii, Lactococcus lactis, and Weissella soli were present during the early fermentation period, but the LAB community was quickly replaced with Lactobacillus sakei, Leuconostoc gasicomitatum, and Weissella koreensis as the fermentation progressed. Metabolite analysis using (1) H-NMR showed that organic acids (lactate, acetate, and succinate) as well as bioactive substances (mannitol and gamma-aminobutyric acid (GABA)) were produced during the kimchi fermentation, and Leuconostoc strains and Lactobacillus sakei were identified as the producers of mannitol and GABA, respectively. © 2013 Institute of Food Technologists®

  1. Indoleacetic acid production and plant growth promoting potential of bacterial endophytes isolated from rice (Oryza sativa L.) seeds.

    Science.gov (United States)

    Shahzad, Raheem; Waqas, Muhammad; Khan, Abdul Latif; Al-Hosni, Khadija; Kang, Sang-Mo; Seo, Chang-Woo; Lee, In-Jung

    2017-06-01

    Bacterial endophytes from the phyllosphere and rhizosphere have been used to produce bioactive metabolites and to promote plant growth. However, little is known about the endophytes residing in seeds. This study aimed to isolate and identify seed-borne bacterial endophytes from rice and elucidate their potential for phytohormone production and growth enhancement. The isolated endophytes included Micrococcus yunnanensis RWL-2, Micrococcus luteus RWL-3, Enterobacter soli RWL-4, Leclercia adecarboxylata RWL-5, Pantoea dispersa RWL-6, and Staphylococcus epidermidis RWL-7, which were identified using 16S rRNA sequencing and phylogenetic analysis. These strains were analyzed for indoleacetic acid (IAA) production by using GC-MS and IAA was found in the range of 11.50 ± 0.77 μg ml -1 to 38.80 ± 1.35 μg ml -1 . We also assessed the strains for plant growth promoting potential because these isolates were able to produce IAA in pure culture. Most of the growth attributes of rice plants (shoot and root length, fresh and dry biomass, and chlorophyll content) were significantly increased by bacterial endophytes compared to the controls. These results show that IAA producing bacterial endophytes can improve hostplant growth traits and can be used as bio-fertilizers.

  2. BIORREMEDIACIÓN DE UN SUELO CON DIESEL MEDIANTE EL USO DE MICROORGANISMOS AUTÓCTONOS

    Directory of Open Access Journals (Sweden)

    ARRIETA RAMÍREZ OLGA MARIA

    2012-07-01

    Full Text Available En este estudio, se aisló y caracterizó bioquímica y molecularmente un consorcio bacteriano capaz de degradar los diferentes hidrocarburos presentes en un combustible diesel,conformado por los siguientes géneros: Enterobacter sp, Bacillus sp, Staphylococcus aureus, Sanguibacter soli, Arthrobacter sp y Flavobacterium sp, a partir de un suelo contaminado con diesel a escala de laboratorio, y tratado mediante 2 tecnologías de biorremediación: atenuación natural y bioestimulación. Se definió como parámetro de control la concentración de Hidrocarburos Totales del Petróleo (HTP y para el cual, se obtuvo una reducción en la concentración en un periodo de 4 meses de 36,86% para atenuación natural y 50,99% para bioestimulación. La medición de la eficiencia de remoción de hidrocarburos se cuantificó por cromatografía de gases acoplada a masas (GC-MS.

  3. Preserved genetic diversity in organoids cultured from biopsies of human colorectal cancer metastases.

    Science.gov (United States)

    Weeber, Fleur; van de Wetering, Marc; Hoogstraat, Marlous; Dijkstra, Krijn K; Krijgsman, Oscar; Kuilman, Thomas; Gadellaa-van Hooijdonk, Christa G M; van der Velden, Daphne L; Peeper, Daniel S; Cuppen, Edwin P J G; Vries, Robert G; Clevers, Hans; Voest, Emile E

    2015-10-27

    Tumor organoids are 3D cultures of cancer cells. They can be derived from the tumor of each individual patient, thereby providing an attractive ex vivo assay to tailor treatment. Using patient-derived tumor organoids for this purpose requires that organoids derived from biopsies maintain the genetic diversity of the in vivo tumor. In this study tumor biopsies were obtained from 14 patients with metastatic colorectal cancer (i) to test the feasibility of organoid culture from metastatic biopsy specimens and (ii) to compare the genetic diversity of patient-derived tumor organoids and the original tumor biopsy. Genetic analysis was performed using SOLiD sequencing for 1,977 cancer-relevant genes. Copy number profiles were generated from sequencing data using CopywriteR. Here we demonstrate that organoid cultures can be established from tumor biopsies of patients with metastatic colorectal cancer with a success rate of 71%. Genetic analysis showed that organoids reflect the metastasis from which they were derived. Ninety percent of somatic mutations were shared between organoids and biopsies from the same patient, and the DNA copy number profiles of organoids and the corresponding original tumor show a correlation of 0.89. Most importantly, none of the mutations that were found exclusively in either the tumor or organoid culture are in driver genes or genes amenable for drug targeting. These findings support further exploration of patient-derived organoids as an ex vivo platform to personalize anticancer treatment.

  4. Resolving Azimuth Ambiguity Using Vertical Nature of Solar Quiet-Sun Magnetic Fields

    Science.gov (United States)

    Gosain, S.; Pevtsov, A. A.

    2013-03-01

    The measurement of solar magnetic fields using the Zeeman effect diagnostics has a fundamental 180° ambiguity in the determination of the azimuth angle of the transverse field component. There are several methods that are used in the community and each one has its merits and demerits. Here we present a disambiguation idea that is based on the assumption that most of the magnetic field on the sun is predominantly vertical. While the method is not applicable to penumbra or other features harboring predominantly horizontal fields like the sheared neutral lines, it is useful for regions where fields are predominantly vertical like network and plage areas. The method is tested with the full-disk solar vector magnetograms observed by the SOLIS/VSM instrument. We find that statistically about 60 - 85 % of the pixels in a typical full-disk magnetogram has a field inclination in the range of 0 - 30° with respect to the local solar normal, and thus can be successfully disambiguated by the proposed method. Due to its non-iterative nature, the present method is extremely fast and therefore can be used as a good initial guess for iterative schemes like the non-potential field computation (NPFC) method. Furthermore, the method is insensitive to noisy pixels as it does not depend upon the neighboring pixels or derivatives.

  5. Parenting under the influence: the effects of opioids, alcohol and cocaine on mother-child interaction.

    Science.gov (United States)

    Slesnick, Natasha; Feng, Xin; Brakenhoff, Brittany; Brigham, Gregory S

    2014-05-01

    Nearly 20% of adults receiving treatment for a substance use disorder live with their minor children (Stanger et al., 1999) and women in drug use treatment are twice as likely as men to have children in their household (Wechsberg et al., 1998). Parental drug use impacts the family through reduced family resources such as money and food, and researchers consistently note parenting deficits among substance users (Solis, Shadur, Burns, & Hussong, 2012). Little is known about differences in parenting and mother-child interaction among mothers with different drugs of choice or among mothers of older children, between 8 and 16 years. This study reports the findings from a sample of treatment seeking opioid, alcohol and cocaine using mothers and their 8-16-year-old child. Findings from a mother-child observational task and self-reported parenting measure indicated less undermining autonomy and higher mother maternal acceptance among opioid compared to alcohol addicted mothers. African American mothers were observed to have fewer negative interactional behaviors than Whites and both African American mothers and children self-reported higher firm control and maternal acceptance. Overall, mothers appeared to struggle with effective discipline with older versus younger children. Findings offer useful information to clinicians seeking to effectively tailor their interventions to women and children who present with different drugs of abuse, race/culture and developmental stage of child. Copyright © 2014 Elsevier Ltd. All rights reserved.

  6. The dazed and confused identity of Agassiz’s land tortoise, Gopherus agassizii (Testudines: Testudinidae with the description of a new species and its consequences for conservation

    Directory of Open Access Journals (Sweden)

    Robert Murphy

    2011-06-01

    Full Text Available We investigate a cornucopia of problems associated with the identity of the desert tortoise, Gopherus agassizii Cooper. The date of publication is found to be 1861, rather than 1863. Only one of the three original cotypes exists, and it is designated as the lectotype of the species. Another cotype is found to have been destroyed in the 1906 San Francisco earthquake and subsequent fire. The third is lost. The lectotype is genetically confirmed to be from California, and not Arizona, USA as sometimes reported. Maternally, the holotype of G. lepidocephalus Ottley et Velázques Solis, 1989 from the Cape Region of Baja California Sur, Mexico is also from the Mojavian population of the desert tortoise, and not from Tiburon Island, Sonora, Mexico as previously proposed. A suite of characters serve to diagnose tortoises west and north of the Colorado River, the Mojavian population, from those east and south of the river in Arizona, USA and Sonora and Sinaloa, Mexico, the Sonoran population. Species recognition is warranted and because G. lepidocephalus is from the Mojavian population no names are available for the Sonoran species. Thus, a new species, Gopherus morafkai sp. n., is named and this action reduces the distribution of G. agassizii to only 30% of its former range. This reduction has important implications for the conservation and protection of G. agassizii, which may deserve a higher level of protection.

  7. Enhanced mineralization of diuron using a cyclodextrin-based bioremediation technology.

    Science.gov (United States)

    Villaverde, Jaime; Posada-Baquero, Rosa; Rubio-Bellido, Marina; Laiz, Leonila; Saiz-Jimenez, Cesareo; Sanchez-Trujillo, María A; Morillo, Esmeralda

    2012-10-10

    The phenylurea herbicide diuron [N-(3,4-dichlorophenyl)-N,N-dimethylurea] is widely used in a broad range of herbicide formulations and, consequently, it is frequently detected as a major soil and water contaminant in areas where there is extensive use. Diuron has the unfortunate combination of being strongly adsorbed by soil organic matter particles and, hence, slowly degraded in the environment due to its reduced bioavailability. N-Phenylurea herbicides seem to be biodegraded in soil, but it must be kept in mind that this biotic or abiotic degradation could lead to accumulation of very toxic derived compounds, such as 3,4-dichloroaniline. Research was conducted to find procedures that might result in an increase in the bioavailability of diuron in contaminated soils, through solubility enhancement. For this purpose a double system composed of hydroxypropyl-β-cyclodextrin (HPBCD), which is capable of forming inclusion complexes in solution, and a two-member bacterial consortium formed by the diuron-degrading Arthrobacter sulfonivorans (Arthrobacter sp. N2) and the linuron-degrading Variovorax soli (Variovorax sp. SRS16) was used. This consortium can achieve a complete biodegradation of diuron to CO2 with regard to that observed in the absence of the CD solution, where only a 45% biodegradation was observed. The cyclodextrin-based bioremediation technology here described shows for the first time an almost complete mineralization of diuron in a soil system, in contrast to previous incomplete mineralization based on single or consortium bacterial degradation.

  8. Flavobacterium lindanitolerans sp. nov., isolated from hexachlorocyclohexane-contaminated soil.

    Science.gov (United States)

    Jit, Simran; Dadhwal, Mandeep; Prakash, Om; Lal, Rup

    2008-07-01

    A Gram-negative, non-spore-forming, cream-yellow-pigmented bacterial strain, IP-10(T), was isolated from soil samples from a waste site highly contaminated with hexachlorocyclohexane in Ummari village, India. The organism showed the highest 16S rRNA gene sequence similarity of 92.7 % with Flavobacterium soli KCTC 12542(T) and levels of 87-92 % with the type strains of other recognized species of the genus Flavobacterium. The DNA G+C content of strain IP-10(T) was 31 mol%. The predominant fatty acids were iso-C(15 : 0) (22.1 %), iso-C(17 : 0) 3-OH (18.5 %) and summed feature 3 (comprising C(16 : 1)omega7c and/or iso-C(15 : 0) 2-OH; 13.2 %). Strain IP-10(T) could be differentiated from recognized species of the genus Flavobacterium based on a number of phenotypic features. Strain IP-10(T) is therefore considered to represent a novel species of the genus Flavobacterium, for which the name Flavobacterium lindanitolerans sp. nov. is proposed. The type strain is IP-10(T) (=MTCC 8597(T)=CCM 7424(T)).

  9. Assessing the accuracy of blood RNA profiles to identify patients with post-concussion syndrome: A pilot study in a military patient population.

    Science.gov (United States)

    Hardy, Jimmaline J; Mooney, Scott R; Pearson, Andrea N; McGuire, Dawn; Correa, Daniel J; Simon, Roger P; Meller, Robert

    2017-01-01

    Mild traumatic brain injury (mTBI) is a complex, neurophysiological condition that can have detrimental outcomes. Yet, to date, no objective method of diagnosis exists. Physical damage to the blood-brain-barrier and normal waste clearance via the lymphatic system may enable the detection of biomarkers of mTBI in peripheral circulation. Here we evaluate the accuracy of whole transcriptome analysis of blood to predict the clinical diagnosis of post-concussion syndrome (PCS) in a military cohort. Sixty patients with clinically diagnosed chronic concussion and controls (no history of concussion) were recruited (retrospective study design). Male patients (46) were split into a training set comprised of 20 long-term concussed (> 6 months and symptomatic) and 12 controls (no documented history of concussion). Models were validated in a testing set (control = 9, concussed = 5). RNA_Seq libraries were prepared from whole blood samples for sequencing using a SOLiD5500XL sequencer and aligned to hg19 reference genome. Patterns of differential exon expression were used for diagnostic modeling using support vector machine classification, and then validated in a second patient cohort. The accuracy of RNA profiles to predict the clinical diagnosis of post-concussion syndrome patients from controls was 86% (sensitivity 80%; specificity 89%). In addition, RNA profiles reveal duration of concussion. This pilot study shows the potential utility of whole transcriptome analysis to establish the clinical diagnosis of chronic concussion syndrome.

  10. Transcriptome of the alternative ethanol production strain Dekkera bruxellensis CBS 11270 in sugar limited, low oxygen cultivation.

    Directory of Open Access Journals (Sweden)

    Ievgeniia A Tiukova

    Full Text Available Dekkera bruxellensis can outcompete Saccharomyces cerevisiae in environments with low sugar concentrations. It is usually regarded as a spoilage yeast but has lately been identified as an alternative ethanol production organism. In this study, global gene expression in the industrial isolate D. bruxellensis CBS 11270 under oxygen and glucose limitation was investigated by whole transcriptome sequencing using the AB SOLiD technology. Among other observations, we noted expression of respiratory complex I NADH-ubiquinone reductase although D. bruxellensis is a Crabtree positive yeast. The observed higher expression of NADH-generating enzymes compared to NAD(+-generating enzymes might be the reason for the previously observed NADH imbalance and resulting Custer effect in D. bruxellensis. Low expression of genes involved in glycerol production is probably the molecular basis for high efficiency of D. bruxellensis metabolism under nutrient limitation. No D. bruxellensis homologs to the genes involved in the final reactions of glycerol biosynthesis were detected. A high number of expressed sugar transporter genes is consistent with the hypothesis that the competitiveness of D. bruxellensis is due to a higher affinity for the limiting substrate.

  11. The dazed and confused identity of Agassiz's land tortoise, Gopherus agassizii (Testudines, Testudinidae) with the description of a new species, and its consequences for conservation

    Science.gov (United States)

    Murphy, Robert K.; Berry, Kristin; Edwards, Taylor; Leviton, Alan E.; Lathrop, Amy; Riedle, J. Daren

    2011-01-01

    We investigate a cornucopia of problems associated with the identity of the desert tortoise, Gopherus agassizii Cooper. The date of publication is found to be 1861, rather than 1863. Only one of the three original cotypes exists, and it is designated as the lectotype of the species. Another cotype is found to have been destroyed in the 1906 San Francisco earthquake and subsequent fire. The third is lost. The lectotype is genetically confirmed to be from California, and not Arizona, USA as sometimes reported. Maternally, the holotype of G. lepidocephalus Ottley et Velázques Solis, 1989 from the Cape Region of Baja California Sur, Mexico is also from the Mojavian population of the desert tortoise, and not from Tiburon Island, Sonora, Mexico as previously proposed. A suite of characters serve to diagnose tortoises west and north of the Colorado River, the Mojavian population, from those east and south of the river in Arizona, USA and Sonora and Sinaloa, Mexico, the Sonoran population. Species recognition is warranted and because G. lepidocephalus is from the Mojavian population no names are available for the Sonoran species. Thus, a new species, Gopherus morafkai sp. n., is named and this action reduces the distribution of G. agassizii to only 30% of its former range. This reduction has important implications for the conservation and protection of G. agassizii, which may deserve a higher level of protection.

  12. Subsidence after anterior cervical inter-body fusion. A randomized prospective clinical trial.

    Science.gov (United States)

    Kast, Erich; Derakhshani, Sharam; Bothmann, Matthias; Oberle, Joachim

    2009-04-01

    In ventral fusion after anterior cervical discectomy there is still a remarkable number of cage subsidence and segmental kyphosis seen. The aim of the present study is to assess whether the cage design influences the extent of correction loss during follow-up. Sixty patients with single-level cervical disc herniation were randomly treated with two different cervical inter-body cages (group 1: Solis cage, Stryker Company and group 2: Shell cage, AMT Company). Clinical and radiological follow-up was done before and after surgery, 3 and 6 months post-surgery. Clinical follow-up was done with the help of Odom's criteria. Both groups were similar in the baseline parameters (age, sex, treated level). Statistically, the subsidence was significantly higher at 3 and 6-month follow-ups in group 1 than in group 2, however, clinical results showed no significant differences. In 67%, subsidence was seen in the anterior lower aspect of the treated segment. Segmental kyphosis was seen in seven patients of group 1 and two patients of group 2. A significant correlation is found between Odom's criteria and subsidence. Although there was no significant difference in a short-term clinical result between the two treatment groups, we recommend the use of cages which preserve the determined segmental height and lordosis.

  13. Performance comparison of digital microRNA profiling technologies applied on human breast cancer cell lines.

    Directory of Open Access Journals (Sweden)

    Erik Knutsen

    Full Text Available MicroRNA profiling represents an important first-step in deducting individual RNA-based regulatory function in a cell, tissue, or at a specific developmental stage. Currently there are several different platforms to choose from in order to make the initial miRNA profiles. In this study we investigate recently developed digital microRNA high-throughput technologies. Four different platforms were compared including next generation SOLiD ligation sequencing and Illumina HiSeq sequencing, hybridization-based NanoString nCounter, and miRCURY locked nucleic acid RT-qPCR. For all four technologies, full microRNA profiles were generated from human cell lines that represent noninvasive and invasive tumorigenic breast cancer. This study reports the correlation between platforms, as well as a more extensive analysis of the accuracy and sensitivity of data generated when using different platforms and important consideration when verifying results by the use of additional technologies. We found all the platforms to be highly capable for microRNA analysis. Furthermore, the two NGS platforms and RT-qPCR all have equally high sensitivity, and the fold change accuracy is independent of individual miRNA concentration for NGS and RT-qPCR. Based on these findings we propose new guidelines and considerations when performing microRNA profiling.

  14. Deinococcus multiflagellatus sp. nov., isolated from a car air-conditioning system.

    Science.gov (United States)

    Kim, Dong-Uk; Lee, Hyosun; Lee, Suyeon; Park, Sooyeon; Yoon, Jung-Hoon; Zhao, Lei; Kim, Min-Kyu; Ahn, Jae-Hyung; Ka, Jong-Ok

    2018-04-01

    A gamma radiation-resistant and pink-to-red pigmented bacterial strain, designated ID1504 T , was isolated from a car air-conditioning system sampled in Korea. The cells were observed to be Gram-stain negative, aerobic, motile with peritrichous flagella and short rod-shaped. Phylogenetically, the strain groups with the members of the genus Deinococcus and exhibits high 16S rRNA gene sequence similarities with Deinococcus arenae SA1 T (94.0%), Deinococcus actinosclerus BM2 T (93.9%) and Deinococcus soli N5 T (93.5%). The predominant fatty acids were identified as C 17:0 , C 16:0 , summed feature 3 (C 16:1 ω7c and/or C 16:1 ω6c) and iso-C 17:0 . The major respiratory quinone was identified as MK-8. The polar lipids were found to be comprised of unidentified phospholipids, unidentified glycolipids, an unidentified aminophospholipid and an unidentified lipid. The DNA G+C content of the strain was determined to be 68.3 mol%. On the basis of the phenotypic, genotypic and chemotaxonomic characteristics, strain ID1504 T should be classified in a novel species in the genus Deinococcus, for which the name Deinococcus multiflagellatus sp. nov. (= KACC 19287 T  = NBRC 112888 T ) is proposed.

  15. Toxicity evaluation of textile effluents and role of native soil bacterium in biodegradation of a textile dye.

    Science.gov (United States)

    Khan, Sana; Malik, Abdul

    2018-02-01

    Water pollution caused by the discharge of hazardous textile effluents is a serious environmental problem worldwide. In order to assess the pollution level of the textile effluents, various physico-chemical parameters were analyzed in the textile wastewater and agricultural soil irrigated with the wastewater (contaminated soil) using atomic absorption spectrophotometer and gas chromatography-mass spectrometry (GC-MS) analysis that demonstrated the presence of several toxic heavy metals (Ni, Cu, Cr, Pb, Cd, and Zn) and a large number of organic compounds. Further, in order to get a comprehensive idea about the toxicity exerted by the textile effluent, mung bean seed germination test was performed that indicated the reduction in percent seed germination and radicle-plumule growth. The culturable microbial populations were also enumerated and found to be significantly lower in the wastewater and contaminated soil than the ground water irrigated soil, thus indicating the biotic homogenization of indigenous microflora. Therefore, the study was aimed to develop a cost effective and ecofriendly method of textile waste treatment using native soil bacterium, identified as Arthrobacter soli BS5 by 16S rDNA sequencing that showed remarkable ability to degrade a textile dye reactive black 5 with maximum degradation of 98% at 37 °C and pH in the range of 5-9 after 120 h of incubation.

  16. Reproducibility of Variant Calls in Replicate Next Generation Sequencing Experiments.

    Directory of Open Access Journals (Sweden)

    Yuan Qi

    Full Text Available Nucleotide alterations detected by next generation sequencing are not always true biological changes but could represent sequencing errors. Even highly accurate methods can yield substantial error rates when applied to millions of nucleotides. In this study, we examined the reproducibility of nucleotide variant calls in replicate sequencing experiments of the same genomic DNA. We performed targeted sequencing of all known human protein kinase genes (kinome (~3.2 Mb using the SOLiD v4 platform. Seventeen breast cancer samples were sequenced in duplicate (n=14 or triplicate (n=3 to assess concordance of all calls and single nucleotide variant (SNV calls. The concordance rates over the entire sequenced region were >99.99%, while the concordance rates for SNVs were 54.3-75.5%. There was substantial variation in basic sequencing metrics from experiment to experiment. The type of nucleotide substitution and genomic location of the variant had little impact on concordance but concordance increased with coverage level, variant allele count (VAC, variant allele frequency (VAF, variant allele quality and p-value of SNV-call. The most important determinants of concordance were VAC and VAF. Even using the highest stringency of QC metrics the reproducibility of SNV calls was around 80% suggesting that erroneous variant calling can be as high as 20-40% in a single experiment. The sequence data have been deposited into the European Genome-phenome Archive (EGA with accession number EGAS00001000826.

  17. Pantani di Marco Martinelli: una narrazione polifonica

    Directory of Open Access Journals (Sweden)

    Franco Nasi

    2014-05-01

    Full Text Available In questo articolo si analizza il testo drammaturgico Pantani di Marco Martinelli, una veglia epica teatrale di uno dei più noti eroi dello sport italiano degli ultimi anni. Il dramma rilegge anche la storia di Pantani e ricostruisce gli strani avvenimenti che portarono alla sospensione, alla estromissione del ciclista dal Giro d’Italia nel 1999, e in seguito alla sua profonda crisi psicologica e tragica morte in solitudine in un hotel, a soli 34 anni. Oltre alle modalità proprie della veglia rituale, il dramma utilizza anche i metodi del processo giudiziario, e offre testimonianze dettagliate che conducono a una riflessione critica sulla società italiana negli anni del potere politico di Berlusconi e della sua filosofia del consumismo. I tre diversi generi della retorica classica (epidittico, giudiziario e deliberativo si mescolano in questa complessa tessitura teatrale. Coniugando informazioni (processo e rito (veglia, Martinelli riesce a fondere la tragedia greca (forma mimetica e corale e il moderno teatro di narrazione (forma diegetica monologante. Combinando assieme scene intensamente drammatiche, ricordi di imprese sportive epiche, passaggi giocosi e parodici, e giustapponendo vari stili e registri (giornalistico, lirico, parodico, elegiaco, Martinelli crea momenti di forte “straniamento” e sorpresa, e rende particolarmente efficace il rito funebre, la ricostruzione storica della tragica vicenda di Pantani e la critica all’ideologia che ha dominato l’Italia negli anni di Berlusconi.

  18. Magnetic Flux Rope Shredding By a Hyperbolic Flux Tube: The Detrimental Effects of Magnetic Topology on Solar Eruptions

    International Nuclear Information System (INIS)

    Chintzoglou, Georgios; Vourlidas, Angelos; Savcheva, Antonia; Tassev, Svetlin; Beltran, Samuel Tun; Stenborg, Guillermo

    2017-01-01

    We present the analysis of an unusual failed eruption captured in high cadence and in many wavelengths during the observing campaign in support of the Very high Angular resolution Ultraviolet Telescope ( VAULT2.0 ) sounding rocket launch. The refurbished VAULT2.0 is a Ly α ( λ 1216 Å) spectroheliograph launched on 2014 September 30. The campaign targeted active region NOAA AR 12172 and was closely coordinated with the Hinode and IRIS missions and several ground-based observatories (NSO/IBIS, SOLIS, and BBSO). A filament eruption accompanied by a low-level flaring event (at the GOES C-class level) occurred around the VAULT2.0 launch. No coronal mass ejection was observed. The eruption and its source region, however, were recorded by the campaign instruments in many atmospheric heights ranging from the photosphere to the corona in high cadence and spatial resolution. This is a rare occasion that enabled us to perform a comprehensive investigation on a failed eruption. We find that a rising Magnetic Flux Rope (MFR)-like structure was destroyed during its interaction with the ambient magnetic field, creating downflows of cool plasma and diffuse hot coronal structures reminiscent of “cusps.” We employ magnetofrictional simulations to show that the magnetic topology of the ambient field is responsible for the destruction of the MFR. Our unique observations suggest that the magnetic topology of the corona is a key ingredient for a successful eruption.

  19. Progress on Reconstructing the Solar Coronal Magnetic Field above Active region at different scales

    Science.gov (United States)

    Canou, A.; Amari, T.

    2013-03-01

    he low solar corona is dominated by the magnetic field which is created in the Sun's interior by a dynamo process and which then emerges into the atmosphere. This magnetic field plays an important role in most structures and phenomena observed at various wavelengths such as prominences, small and large scale eruptive events, and continuous heating of the plasma. It is therefore important to understand its three-dimensional properties in order to elaborate efficient theoretical models. Unfortunately, the magnetic field is difficult to measure locally in the hot and tenuous corona. But this can be done at the level of the cooler and denser photosphere, and several instruments with high resolution vector magnetographs are currently available (e.g. THEMIS/MTR, SOLIS/VSM, HINODE/SOT/SP or SDO/HMI) or will be available on future programmed missions (e.g. Solar Orbiter, ATST and EST). This has lead solar physicists to develop an approach which consists in reconstructing the coronal magnetic field from boundary data given on the photosphere. We will present our recent progress and results to solve this problem at the active region scale or the larger one such as the full disk or synoptic one, for which the large amount of data as well as their sparsity on the solar disk, require to develop particular strategies. We will also show how this can be helpful to characterize the many aspects of active regions during their static or pre-eruptive evolution phases.

  20. A Comparative Study of Magnetic Fields in the Solar Photosphere and Chromosphere at Low and Polar Latitudes

    Science.gov (United States)

    Patrikeeva, Irina; Petrie, G.

    2009-05-01

    The SOLIS Vector-Spectromagnetograph produces full-disk line-of-sight (LOS) magnetic flux images deriving from both photospheric and chromospheric layers on a daily basis. We investigate key properties of the magnetic field in these two layers using more than five years of VSM data. We find from near-equatorial measurements that the East-West inclination angle of most photospheric fields is about 12°, while chromospheric fields expand in all directions to a significant degree. Using a simple stereoscopic inversion we find evidence that photospheric polar fields are also nearly radial, but that during 2008 the chromospheric field in the south pole was expanding super-radially. We obtain a spatially-resolved polar photospheric flux distribution up to 80° latitude whose strength increases poleward approximately as cosine(colatitude) to the power 9-10. This distribution would give a polar field strength of 5-6 G. These results have implications for future synoptic map construction and global modeling. This work is carried out through the National Solar Observatory Research Experiences for Undergraduate (REU) site program, which is co-funded by the Department of Defense in partnership with the National Science Foundation REU Program.

  1. Magnetic Flux Rope Shredding By a Hyperbolic Flux Tube: The Detrimental Effects of Magnetic Topology on Solar Eruptions

    Energy Technology Data Exchange (ETDEWEB)

    Chintzoglou, Georgios [Lockheed Martin Solar and Astrophysics Laboratory, 3176 Porter Drive, Palo Alto, CA 94304 (United States); Vourlidas, Angelos [The Johns Hopkins University Applied Physics Laboratory, Laurel, MD 20723 (United States); Savcheva, Antonia; Tassev, Svetlin [Harvard-Smithsonian Center for Astrophysics, Cambridge, MA 02138 (United States); Beltran, Samuel Tun; Stenborg, Guillermo, E-mail: gchintzo@lmsal.com [Space Science Division, Naval Research Laboratory, Washington, DC 20375 (United States)

    2017-07-10

    We present the analysis of an unusual failed eruption captured in high cadence and in many wavelengths during the observing campaign in support of the Very high Angular resolution Ultraviolet Telescope ( VAULT2.0 ) sounding rocket launch. The refurbished VAULT2.0 is a Ly α ( λ 1216 Å) spectroheliograph launched on 2014 September 30. The campaign targeted active region NOAA AR 12172 and was closely coordinated with the Hinode and IRIS missions and several ground-based observatories (NSO/IBIS, SOLIS, and BBSO). A filament eruption accompanied by a low-level flaring event (at the GOES C-class level) occurred around the VAULT2.0 launch. No coronal mass ejection was observed. The eruption and its source region, however, were recorded by the campaign instruments in many atmospheric heights ranging from the photosphere to the corona in high cadence and spatial resolution. This is a rare occasion that enabled us to perform a comprehensive investigation on a failed eruption. We find that a rising Magnetic Flux Rope (MFR)-like structure was destroyed during its interaction with the ambient magnetic field, creating downflows of cool plasma and diffuse hot coronal structures reminiscent of “cusps.” We employ magnetofrictional simulations to show that the magnetic topology of the ambient field is responsible for the destruction of the MFR. Our unique observations suggest that the magnetic topology of the corona is a key ingredient for a successful eruption.

  2. Semi-automated library preparation for high-throughput DNA sequencing platforms.

    Science.gov (United States)

    Farias-Hesson, Eveline; Erikson, Jonathan; Atkins, Alexander; Shen, Peidong; Davis, Ronald W; Scharfe, Curt; Pourmand, Nader

    2010-01-01

    Next-generation sequencing platforms are powerful technologies, providing gigabases of genetic information in a single run. An important prerequisite for high-throughput DNA sequencing is the development of robust and cost-effective preprocessing protocols for DNA sample library construction. Here we report the development of a semi-automated sample preparation protocol to produce adaptor-ligated fragment libraries. Using a liquid-handling robot in conjunction with Carboxy Terminated Magnetic Beads, we labeled each library sample using a unique 6 bp DNA barcode, which allowed multiplex sample processing and sequencing of 32 libraries in a single run using Applied Biosystems' SOLiD sequencer. We applied our semi-automated pipeline to targeted medical resequencing of nuclear candidate genes in individuals affected by mitochondrial disorders. This novel method is capable of preparing as much as 32 DNA libraries in 2.01 days (8-hour workday) for emulsion PCR/high throughput DNA sequencing, increasing sample preparation production by 8-fold.

  3. COMPARING CORONAL AND HELIOSPHERIC MAGNETIC FIELDS OVER SEVERAL SOLAR CYCLES

    Energy Technology Data Exchange (ETDEWEB)

    Koskela, J. S.; Virtanen, I. I.; Mursula, K., E-mail: jennimari.koskela@oulu.fi [University of Oulu, P.O. Box 3000, FI-90014 Oulu (Finland)

    2017-01-20

    Here we use the PFSS model and photospheric data from Wilcox Solar Observatory, SOHO /MDI, SDO/HMI, and SOLIS to compare the coronal field with heliospheric magnetic field measured at 1 au, compiled in the NASA/NSSDC OMNI 2 data set. We calculate their mutual polarity match and the power of the radial decay, p , of the radial field using different source surface distances and different number of harmonic multipoles. We find the average polarity match of 82% for the declining phase, 78%–79% for maxima, 76%–78% for the ascending phase, and 74%–76% for minima. On an average, the source surface of 3.25 R{sub S} gives the best polarity match. We also find strong evidence for solar cycle variation of the optimal source surface distance, with highest values (3.3 R{sub S}) during solar minima and lowest values (2.6 R{sub S}–2.7 R{sub S}) during the other three solar cycle phases. Raising the number of harmonic terms beyond 2 rarely improves the polarity match, showing that the structure of the HMF at 1 au is most of the time rather simple. All four data sets yield fairly similar polarity matches. Thus, polarity comparison is not affected by photospheric field scaling, unlike comparisons of the field intensity.

  4. Magnetic Flux Rope Shredding By a Hyperbolic Flux Tube: The Detrimental Effects of Magnetic Topology on Solar Eruptions

    Science.gov (United States)

    Chintzoglou, Georgios; Vourlidas, Angelos; Savcheva, Antonia; Tassev, Svetlin; Tun Beltran, Samuel; Stenborg, Guillermo

    2017-07-01

    We present the analysis of an unusual failed eruption captured in high cadence and in many wavelengths during the observing campaign in support of the Very high Angular resolution Ultraviolet Telescope (VAULT2.0) sounding rocket launch. The refurbished VAULT2.0 is a Lyα (λ 1216 Å) spectroheliograph launched on 2014 September 30. The campaign targeted active region NOAA AR 12172 and was closely coordinated with the Hinode and IRIS missions and several ground-based observatories (NSO/IBIS, SOLIS, and BBSO). A filament eruption accompanied by a low-level flaring event (at the GOES C-class level) occurred around the VAULT2.0 launch. No coronal mass ejection was observed. The eruption and its source region, however, were recorded by the campaign instruments in many atmospheric heights ranging from the photosphere to the corona in high cadence and spatial resolution. This is a rare occasion that enabled us to perform a comprehensive investigation on a failed eruption. We find that a rising Magnetic Flux Rope (MFR)-like structure was destroyed during its interaction with the ambient magnetic field, creating downflows of cool plasma and diffuse hot coronal structures reminiscent of “cusps.” We employ magnetofrictional simulations to show that the magnetic topology of the ambient field is responsible for the destruction of the MFR. Our unique observations suggest that the magnetic topology of the corona is a key ingredient for a successful eruption.

  5. The first Chameleon transcriptome: comparative genomic analysis of the OXPHOS system reveals loss of COX8 in Iguanian lizards.

    Science.gov (United States)

    Bar-Yaacov, Dan; Bouskila, Amos; Mishmar, Dan

    2013-01-01

    Recently, we found dramatic mitochondrial DNA divergence of Israeli Chamaeleo chamaeleon populations into two geographically distinct groups. We aimed to examine whether the same pattern of divergence could be found in nuclear genes. However, no genomic resource is available for any chameleon species. Here we present the first chameleon transcriptome, obtained using deep sequencing (SOLiD). Our analysis identified 164,000 sequence contigs of which 19,000 yielded unique BlastX hits. To test the efficacy of our sequencing effort, we examined whether the chameleon and other available reptilian transcriptomes harbored complete sets of genes comprising known biochemical pathways, focusing on the nDNA-encoded oxidative phosphorylation (OXPHOS) genes as a model. As a reference for the screen, we used the human 86 (including isoforms) known structural nDNA-encoded OXPHOS subunits. Analysis of 34 publicly available vertebrate transcriptomes revealed orthologs for most human OXPHOS genes. However, OXPHOS subunit COX8 (Cytochrome C oxidase subunit 8), including all its known isoforms, was consistently absent in transcriptomes of iguanian lizards, implying loss of this subunit during the radiation of this suborder. The lack of COX8 in the suborder Iguania is intriguing, since it is important for cellular respiration and ATP production. Our sequencing effort added a new resource for comparative genomic studies, and shed new light on the evolutionary dynamics of the OXPHOS system.

  6. Effects of split-dose irradiation of the rabbit's eye - a histopathological study

    International Nuclear Information System (INIS)

    Grabenbauer, G.G.

    1987-01-01

    Thirty-six rabbits were included in a study investigating into the effects of split-dose 300 KV X-irradiation on the cornea, ciliary body, nictitating membrane and lacrimal gland. In each animal, soly the right the eye was irradiated using total doses of 21 Gy, 30 Gy, 36 Gy and 45 Gy that were administered according to a fixed schedule in fractions of 3 Gy five times per week. After latency periods of six weeks, three months and six months the animals receiving 21 Gy, 30 Gy and 36 Gy showed no changes of the bulbi, eye lids and lacrimal glands that could be ascertained by histopathological evaluation. In the animals exposed to the 45 Gy dose, changes of the cornea and conjunctiva caused by radiation injuries to the lacrimal glands and conjunctival goblet cells started to appear after a minimum period of 3 months. This dose level was also the threshold for the occurrence of corneal damage or even ulceration as a result of secondary reduction or qualitative change of lacrimal secretions. (ECB) [de

  7. A Solar Axion Search Using a Decommissioned LHC Test Magnet

    CERN Document Server

    Lozza, V; Christensen, F E; Jakobsen, A C; Neff, S H; Carmona martinez, J M; Giomataris, I; Krcmar, M; Vafeiadis, T; Luzon marco, G M; Gracia garza, J; Lakic, B; Cantatore, G; Solanki, S K; Ozbey, A; Davenport, M; Funk, W; Desch, K K; Villar, J A; Jakovcic, K; Eleftheriadis, C; Diago ortega, A; Zioutas, K; Gardikiotis, A; Cetin, S A; Hasinoff, M D; Hoffmann, D; Laurent, J; Castel pablo, J F; Gninenko, S; Ferrer ribas, E; Liolios, A; Anastasopoulos, V; Kaminski, J; Dafni, T; Garcia irastorza, I; Ruiz choliz, E; Pivovaroff, M J; Krieger, C; Lutz, G; Fanourakis, G; Ruz armendariz, J; Vogel, J K

    2002-01-01

    Previous solar axion searches have been carried out in Brookhaven (1990) and in Tokyo (2000- ), tracking the Sun with a dipole magnet. QCD inspired axions should be produced after the Big Bang, being thus candidates for the dark matter. The Sun is a very useful source of weakly interacting particles for fundamental research. Axions can be produced also in the Sun's core through the scattering of thermal photons in the Coulomb field of electric charges (Primakoff effect). In a transverse magnetic field the Primakoff effect can work in reverse, coherently converting the solar axions or other axion-like particles (ALPS) back into X-ray photons in the keV range. The conversion efficiency increases with $(B⋅L)^2$. In the CAST experiment an LHC prototype dipole magnet (B = 9 T and L = 10 m) with straight beam pipes provides a conversion efficiency exceeding that of the two earlier solar axion telescopes by almost a factor of 100. This magnet is mounted on a moving platform and coupled to both gas filled and soli...

  8. Sinomonas humi sp. nov., an amylolytic actinobacterium isolated from mangrove forest soil.

    Science.gov (United States)

    Lee, Learn-Han; Azman, Adzzie-Shazleen; Zainal, Nurullhudda; Yin, Wai-Fong; Mutalib, Nurul-Syakima Ab; Chan, Kok-Gan

    2015-03-01

    Strain MUSC 117(T) was isolated from mangrove soil of the Tanjung Lumpur forest in Pahang, Malaysia. This bacterium was yellowish-white pigmented, Gram-staining-positive, rod-coccus shaped and non-motile. On the basis of 16S rRNA gene sequence, strain MUSC 117(T) exhibited highest sequence similarity to Sinomonas atrocyanea DSM 20127(T) (98.0 %), Sinomonas albida LC13(T) (97.9 %) and Sinomonas soli CW 59(T) (97.8 %), and lower (10.0 %) of the cell membrane were anteiso-C15 : 0 (39.4 %), C18 : 1ω7c (17.7 %), anteiso-C17 : 0 (17.2 %) and iso-C16 : 0 (11.4 %). The predominant respiratory quinones detected were MK-9(H2) and MK-9. The DNA G+C content was 67.3 mol%. A comparison of BOX-PCR fingerprints indicated that strain MUSC 117(T) represented a unique DNA profile. Results based on a polyphasic approach showed that strain MUSC 117(T) represents a novel species of the genus Sinomonas, for which the name Sinomonas humi sp. nov. is proposed. The type strain of Sinomonas humi sp. nov. is MUSC 117(T) ( = DSM 29362(T) = MCCC 1K00410(T) = NBRC 110653(T)). © 2015 IUMS.

  9. Reproducibility of Variant Calls in Replicate Next Generation Sequencing Experiments

    Science.gov (United States)

    Qi, Yuan; Liu, Xiuping; Liu, Chang-gong; Wang, Bailing; Hess, Kenneth R.; Symmans, W. Fraser; Shi, Weiwei; Pusztai, Lajos

    2015-01-01

    Nucleotide alterations detected by next generation sequencing are not always true biological changes but could represent sequencing errors. Even highly accurate methods can yield substantial error rates when applied to millions of nucleotides. In this study, we examined the reproducibility of nucleotide variant calls in replicate sequencing experiments of the same genomic DNA. We performed targeted sequencing of all known human protein kinase genes (kinome) (~3.2 Mb) using the SOLiD v4 platform. Seventeen breast cancer samples were sequenced in duplicate (n=14) or triplicate (n=3) to assess concordance of all calls and single nucleotide variant (SNV) calls. The concordance rates over the entire sequenced region were >99.99%, while the concordance rates for SNVs were 54.3-75.5%. There was substantial variation in basic sequencing metrics from experiment to experiment. The type of nucleotide substitution and genomic location of the variant had little impact on concordance but concordance increased with coverage level, variant allele count (VAC), variant allele frequency (VAF), variant allele quality and p-value of SNV-call. The most important determinants of concordance were VAC and VAF. Even using the highest stringency of QC metrics the reproducibility of SNV calls was around 80% suggesting that erroneous variant calling can be as high as 20-40% in a single experiment. The sequence data have been deposited into the European Genome-phenome Archive (EGA) with accession number EGAS00001000826. PMID:26136146

  10. Bonding of WC with an iron aluminide (FeAl) intermetallic

    Energy Technology Data Exchange (ETDEWEB)

    Schneibel, J.H.; Subramanian, R.

    1996-08-01

    FeAl, which has high oxidation and sulfidation resistance, was shown to be thermodynamically compatible with WC. Calculations indicate that soly. of WC in liq. Fe-40at.%Al at 1450 C is about 2 at.%. Since liquid FeAl wets WC very well, the WC/FeAl system lends itself to liquid-phase sintering, resulting in close to theoretical densities. Almost fully dense cermets with 20.6 wt% FeAl binder were produced. With one-step infiltration, 98% dense cermets with only 7 wt% FeAl binder were fabricated. RT bend strengths and fracture toughness for WC-20.6 wt% FeAl reached 1680 MPa and 22 MPa{center_dot}m{sup 1/2}. Ductile binder fracture was observed on the fracture surfaces. Pores containing oxide inclusions were found, suggesting that improvements in processing are likely to further improve the mechanical properties. Insufficient process control may explain why WC/FeAlNi cermets did not show improved mechanical properties, although Ni strengthens FeAl. For WC bonded with FeAl, mechanical properties were measured at RT and 800 C. Bend strengths at 800 C in air increased with WC volume fraction, and fracture toughness were higher than at RT.

  11. Digital PCR provides sensitive and absolute calibration for high throughput sequencing

    Directory of Open Access Journals (Sweden)

    Fan H Christina

    2009-03-01

    Full Text Available Abstract Background Next-generation DNA sequencing on the 454, Solexa, and SOLiD platforms requires absolute calibration of the number of molecules to be sequenced. This requirement has two unfavorable consequences. First, large amounts of sample-typically micrograms-are needed for library preparation, thereby limiting the scope of samples which can be sequenced. For many applications, including metagenomics and the sequencing of ancient, forensic, and clinical samples, the quantity of input DNA can be critically limiting. Second, each library requires a titration sequencing run, thereby increasing the cost and lowering the throughput of sequencing. Results We demonstrate the use of digital PCR to accurately quantify 454 and Solexa sequencing libraries, enabling the preparation of sequencing libraries from nanogram quantities of input material while eliminating costly and time-consuming titration runs of the sequencer. We successfully sequenced low-nanogram scale bacterial and mammalian DNA samples on the 454 FLX and Solexa DNA sequencing platforms. This study is the first to definitively demonstrate the successful sequencing of picogram quantities of input DNA on the 454 platform, reducing the sample requirement more than 1000-fold without pre-amplification and the associated bias and reduction in library depth. Conclusion The digital PCR assay allows absolute quantification of sequencing libraries, eliminates uncertainties associated with the construction and application of standard curves to PCR-based quantification, and with a coefficient of variation close to 10%, is sufficiently precise to enable direct sequencing without titration runs.

  12. A novel synthetic peptide from a tomato defensin exhibits antibacterial activities against Helicobacter pylori.

    Science.gov (United States)

    Rigano, M M; Romanelli, A; Fulgione, A; Nocerino, N; D'Agostino, N; Avitabile, C; Frusciante, L; Barone, A; Capuano, F; Capparelli, R

    2012-12-01

    Defensins are a class of cysteine-rich proteins, which exert broad spectrum antimicrobial activity. In this work, we used a bioinformatic approach to identify putative defensins in the tomato genome. Fifteen proteins had a mature peptide that includes the well-conserved tetradisulfide array. We selected a representative member of the tomato defensin family; we chemically synthesized its γ-motif and tested its antimicrobial activity. Here, we demonstrate that the synthetic peptide exhibits potent antibacterial activity against Gram-positive bacteria, such as Staphylococcus aureus A170, Staphylococcus epidermidis, and Listeria monocytogenes, and Gram-negative bacteria, including Salmonella enterica serovar Paratyphi, Escherichia coli, and Helicobacter pylori. In addition, the synthetic peptide shows minimal (<5%) hemolytic activity and absence of cytotoxic effects against THP-1 cells. Finally, SolyC exerts an anti-inflammatory activity in vitro, as it downregulates the level of the proinflammatory cytokines TNF-α and IFN-γ. Copyright © 2012 European Peptide Society and John Wiley & Sons, Ltd.

  13. Transcriptional analysis of South African cassava mosaic virus-infected susceptible and tolerant landraces of cassava highlights differences in resistance, basal defense and cell wall associated genes during infection.

    Science.gov (United States)

    Allie, Farhahna; Pierce, Erica J; Okoniewski, Michal J; Rey, Chrissie

    2014-11-20

    Cassava mosaic disease is caused by several distinct geminivirus species, including South African cassava mosaic virus-[South Africa:99] (SACMV). To date, there is limited gene regulation information on viral stress responses in cassava, and global transcriptome profiling in SACMV-infected cassava represents an important step towards understanding natural host responses to plant geminiviruses. A RNA-seq time course (12, 32 and 67 dpi) study, monitoring gene expression in SACMV-challenged susceptible (T200) and tolerant (TME3) cassava landraces, was performed using the Applied Biosystems (ABI) SOLiD next-generation sequencing platform. The multiplexed paired end sequencing run produced a total of 523 MB and 693 MB of paired-end reads for SACMV-infected susceptible and tolerant cDNA libraries, respectively. Of these, approximately 50.7% of the T200 reads and 55.06% of TME3 reads mapped to the cassava reference genome available in phytozome. Using a log2 fold cut-off (pmetabolic pathways, including phenylpropanoid biosynthesis, sucrose and starch metabolism, and plant hormone signalling. Molecular mechanisms for TME3 tolerance are proposed, and differences in patterns and levels of transcriptome profiling between T200 and TME3 with susceptible and tolerant phenotypes, respectively, support the hypothesis that viruses rearrange their molecular interactions in adapting to hosts with different genetic backgrounds.

  14. Processos de tutela e as possibilidades de estudos sobre a família ex-escrava

    Directory of Open Access Journals (Sweden)

    Patricia Urruzola

    2017-06-01

    Full Text Available Este artigo analisa como o processo tutelar oferece múltiplas possibilidades de pesquisa sobre a família ex-escrava no pós-Abolição. Tais processos concentram informações sobre as mães ex-escravas e demais familiares e revelam a rede de solidariedade existente naquela situação judicial. This article analyzes how the tutelary processes can offer multiple research possibilities on the ex-slave family in the post-Abolition period. This processes gathers information about the for-mer slave mothers and other relatives, and reveal information on the solidarity network that was born from that judicial situation. En este artículo se analiza cómo el proceso tutelar ofrece múltiples posibilidades de búsqueda en la antigua familia de esclavos en el post-Abolición. Estos procesos se centran información acerca de los antiguos esclavos madres y otros miembros de la familia y revelan la red de soli-daridad que la situación jurídica existente.

  15. High-throughput sequencing of black pepper root transcriptome

    Science.gov (United States)

    2012-01-01

    Background Black pepper (Piper nigrum L.) is one of the most popular spices in the world. It is used in cooking and the preservation of food and even has medicinal properties. Losses in production from disease are a major limitation in the culture of this crop. The major diseases are root rot and foot rot, which are results of root infection by Fusarium solani and Phytophtora capsici, respectively. Understanding the molecular interaction between the pathogens and the host’s root region is important for obtaining resistant cultivars by biotechnological breeding. Genetic and molecular data for this species, though, are limited. In this paper, RNA-Seq technology has been employed, for the first time, to describe the root transcriptome of black pepper. Results The root transcriptome of black pepper was sequenced by the NGS SOLiD platform and assembled using the multiple-k method. Blast2Go and orthoMCL methods were used to annotate 10338 unigenes. The 4472 predicted proteins showed about 52% homology with the Arabidopsis proteome. Two root proteomes identified 615 proteins, which seem to define the plant’s root pattern. Simple-sequence repeats were identified that may be useful in studies of genetic diversity and may have applications in biotechnology and ecology. Conclusions This dataset of 10338 unigenes is crucially important for the biotechnological breeding of black pepper and the ecogenomics of the Magnoliids, a major group of basal angiosperms. PMID:22984782

  16. Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing

    Science.gov (United States)

    Vianna, Juliana A.; Noll, Daly; Mura-Jornet, Isidora; Valenzuela-Guerra, Paulina; González-Acuña, Daniel; Navarro, Cristell; Loyola, David E.; Dantas, Gisele P. M.

    2017-01-01

    Abstract Microsatellites are valuable molecular markers for evolutionary and ecological studies. Next generation sequencing is responsible for the increasing number of microsatellites for non-model species. Penguins of the Pygoscelis genus are comprised of three species: Adélie (P. adeliae), Chinstrap (P. antarcticus) and Gentoo penguin (P. papua), all distributed around Antarctica and the sub-Antarctic. The species have been affected differently by climate change, and the use of microsatellite markers will be crucial to monitor population dynamics. We characterized a large set of genome-wide microsatellites and evaluated polymorphisms in all three species. SOLiD reads were generated from the libraries of each species, identifying a large amount of microsatellite loci: 33,677, 35,265 and 42,057 for P. adeliae, P. antarcticus and P. papua, respectively. A large number of dinucleotide (66,139), trinucleotide (29,490) and tetranucleotide (11,849) microsatellites are described. Microsatellite abundance, diversity and orthology were characterized in penguin genomes. We evaluated polymorphisms in 170 tetranucleotide loci, obtaining 34 polymorphic loci in at least one species and 15 polymorphic loci in all three species, which allow to perform comparative studies. Polymorphic markers presented here enable a number of ecological, population, individual identification, parentage and evolutionary studies of Pygoscelis, with potential use in other penguin species. PMID:28898354

  17. The XXXV annual conference of the Finnish physical society. Proceedings

    International Nuclear Information System (INIS)

    Kolhinen, V.; Eskola, K.J.; Ruuskanen, V.; Tuominen, K.

    2001-01-01

    The 35th Physics Days of the Finnish Physical Society will have the traditional structure with plenary lectures, short contributions of young researchers, poster sessions, and social events. The number of members of the society has exceeded 1000 and nearly half of them, more than 400, are expected to participate the Physics Days. The Finnish physicists and the Society can be proud of keeping up this tradition. The annual meeting of the Finnish Physical Society will take place during the Physics Days. I wish all the members of the Finnish Physical Society to attend the meeting and continue the discussions more informally at the conference dinner following the annual meeting. The fifth Magnus Ehrnrooth Price for Physics will be given during the opening ceremony of the Physics Days. Also the winners of the SOLIS competition for high school students will be announced. Traditionally, the Days will end by giving prices for the best poster and the best talk. The 35th Physics Days are held in the new congress center Jyvaeskylae Paviljonki and arranged by the University of Jyvaeskylae. The proceedings includes all the abstracts of the presentations given during the 35th Physics Days

  18. High-throughput sequencing of black pepper root transcriptome

    Directory of Open Access Journals (Sweden)

    Gordo Sheila MC

    2012-09-01

    Full Text Available Abstract Background Black pepper (Piper nigrum L. is one of the most popular spices in the world. It is used in cooking and the preservation of food and even has medicinal properties. Losses in production from disease are a major limitation in the culture of this crop. The major diseases are root rot and foot rot, which are results of root infection by Fusarium solani and Phytophtora capsici, respectively. Understanding the molecular interaction between the pathogens and the host’s root region is important for obtaining resistant cultivars by biotechnological breeding. Genetic and molecular data for this species, though, are limited. In this paper, RNA-Seq technology has been employed, for the first time, to describe the root transcriptome of black pepper. Results The root transcriptome of black pepper was sequenced by the NGS SOLiD platform and assembled using the multiple-k method. Blast2Go and orthoMCL methods were used to annotate 10338 unigenes. The 4472 predicted proteins showed about 52% homology with the Arabidopsis proteome. Two root proteomes identified 615 proteins, which seem to define the plant’s root pattern. Simple-sequence repeats were identified that may be useful in studies of genetic diversity and may have applications in biotechnology and ecology. Conclusions This dataset of 10338 unigenes is crucially important for the biotechnological breeding of black pepper and the ecogenomics of the Magnoliids, a major group of basal angiosperms.

  19. High-throughput sequencing of black pepper root transcriptome.

    Science.gov (United States)

    Gordo, Sheila M C; Pinheiro, Daniel G; Moreira, Edith C O; Rodrigues, Simone M; Poltronieri, Marli C; de Lemos, Oriel F; da Silva, Israel Tojal; Ramos, Rommel T J; Silva, Artur; Schneider, Horacio; Silva, Wilson A; Sampaio, Iracilda; Darnet, Sylvain

    2012-09-17

    Black pepper (Piper nigrum L.) is one of the most popular spices in the world. It is used in cooking and the preservation of food and even has medicinal properties. Losses in production from disease are a major limitation in the culture of this crop. The major diseases are root rot and foot rot, which are results of root infection by Fusarium solani and Phytophtora capsici, respectively. Understanding the molecular interaction between the pathogens and the host's root region is important for obtaining resistant cultivars by biotechnological breeding. Genetic and molecular data for this species, though, are limited. In this paper, RNA-Seq technology has been employed, for the first time, to describe the root transcriptome of black pepper. The root transcriptome of black pepper was sequenced by the NGS SOLiD platform and assembled using the multiple-k method. Blast2Go and orthoMCL methods were used to annotate 10338 unigenes. The 4472 predicted proteins showed about 52% homology with the Arabidopsis proteome. Two root proteomes identified 615 proteins, which seem to define the plant's root pattern. Simple-sequence repeats were identified that may be useful in studies of genetic diversity and may have applications in biotechnology and ecology. This dataset of 10338 unigenes is crucially important for the biotechnological breeding of black pepper and the ecogenomics of the Magnoliids, a major group of basal angiosperms.

  20. PCR-DGGE analysis of bacterial community dynamics in kava beverages during refrigeration.

    Science.gov (United States)

    Dong, J; Kandukuru, P; Huang, A S; Li, Y

    2011-07-01

    Kava beverages are highly perishable even under refrigerated conditions. This study aimed to investigate the bacterial community dynamics in kava beverages during refrigeration.  Four freshly made kava beverages were obtained from kava bars and stored at 4°C. On days 0, 3 and 6, the aerobic plate count (APC), lactic acid bacteria (LAB) count and yeast and mould count (YMC) of the samples were determined. Meanwhile, bacterial DNA was extracted from each sample and subjected to the polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE). Moreover, species-specific PCR assays were employed to identify predominant Pseudomonas spp. involved in kava spoilage. Over the storage period, the APC, LAB count and YMC of the four kava beverages all increased, whereas their pH values decreased. The DGGE profile revealed diverse bacterial populations in the samples. LAB, such as Weissella soli, Lactobacillus spp. and Lactococcus lactis, were found in the kava beverages. Species-specific PCR assays detected Pseudomonas putida and Pseudomonas fluorescens in the samples; Ps. fluorescens became dominant during refrigeration. LAB and Pseudomonas may play a significant role in the spoilage of kava beverages. This study provides important information that may be used to extend the shelf life of kava beverages. © 2011 The Authors. Letters in Applied Microbiology © 2011 The Society for Applied Microbiology.

  1. Applications of isotope techniques for the assessment of soil phosphorus status and evaluation of rock phosphates as phosphorus sources for plants in subtropical China

    International Nuclear Information System (INIS)

    Xiong, L.M.; Zhou, Z.G.; Feng, G.L.; Lu, R.K.; Fardeau, J.C.

    2002-01-01

    In an attempt to assess current soil phosphorus status and evaluate the effectiveness of local rock phosphates in subtropical China, nearly 40 representative soil samples from this region were collected and characterized by using 32 P isotope and chemical extraction techniques. Pot experiments, incubation studies and field trials were conducted to investigate the interaction of rock phosphates and water-soluble phosphates as well as the effects of rock phosphate on soil chemical properties in selected soils. Results indicated that these soils were generally low in available phosphorus and high in P-fixing capacity. The soil characteristics dictated that the employed isotope kinetic model was less successful in predicting plant P uptake than the chemical procedures tested. A new chemical extraction method consisting of sodium bicarbonate and ammonium fluoride was proposed to evaluate available P in these Solis. Data on available P generated with the proposed method gave the best prediction of plant uptake amongst all methods compared. In a pot experiment, the combined application of soluble P fertilizer with local rock phosphate significantly enhanced plant growth and increased P uptake. This positive interaction was attributed to the improved soil chemical properties due to the application of low-grade rock phosphates, as demonstrated in incubation studies. These results suggest that rock phosphate-based fertilizers should be good alternative fertilizers for plants in similar acidic soils in southern China. (author)

  2. Atropos: specific, sensitive, and speedy trimming of sequencing reads

    Directory of Open Access Journals (Sweden)

    John P. Didion

    2017-08-01

    Full Text Available A key step in the transformation of raw sequencing reads into biological insights is the trimming of adapter sequences and low-quality bases. Read trimming has been shown to increase the quality and reliability while decreasing the computational requirements of downstream analyses. Many read trimming software tools are available; however, no tool simultaneously provides the accuracy, computational efficiency, and feature set required to handle the types and volumes of data generated in modern sequencing-based experiments. Here we introduce Atropos and show that it trims reads with high sensitivity and specificity while maintaining leading-edge speed. Compared to other state-of-the-art read trimming tools, Atropos achieves significant increases in trimming accuracy while remaining competitive in execution times. Furthermore, Atropos maintains high accuracy even when trimming data with elevated rates of sequencing errors. The accuracy, high performance, and broad feature set offered by Atropos makes it an appropriate choice for the pre-processing of Illumina, ABI SOLiD, and other current-generation short-read sequencing datasets. Atropos is open source and free software written in Python (3.3+ and available at https://github.com/jdidion/atropos.

  3. Breaking the 1000-gene barrier for Mimivirus using ultra-deep genome and transcriptome sequencing

    Directory of Open Access Journals (Sweden)

    Claverie Jean-Michel

    2011-03-01

    Full Text Available Abstract Background Mimivirus, a giant dsDNA virus infecting Acanthamoeba, is the prototype of the mimiviridae family, the latest addition to the family of the nucleocytoplasmic large DNA viruses (NCLDVs. Its 1.2 Mb-genome was initially predicted to encode 917 genes. A subsequent RNA-Seq analysis precisely mapped many transcript boundaries and identified 75 new genes. Findings We now report a much deeper analysis using the SOLiD™ technology combining RNA-Seq of the Mimivirus transcriptome during the infectious cycle (202.4 Million reads, and a complete genome re-sequencing (45.3 Million reads. This study corrected the genome sequence and identified several single nucleotide polymorphisms. Our results also provided clear evidence of previously overlooked transcription units, including an important RNA polymerase subunit distantly related to Euryarchea homologues. The total Mimivirus gene count is now 1018, 11% greater than the original annotation. Conclusions This study highlights the huge progress brought about by ultra-deep sequencing for the comprehensive annotation of virus genomes, opening the door to a complete one-nucleotide resolution level description of their transcriptional activity, and to the realistic modeling of the viral genome expression at the ultimate molecular level. This work also illustrates the need to go beyond bioinformatics-only approaches for the annotation of short protein and non-coding genes in viral genomes.

  4. Il rapporto tra laicità e neutralità: una questione concettuale?

    Directory of Open Access Journals (Sweden)

    Corrado Del Bò

    2014-10-01

    Full Text Available Per la cortesia dell’Autore e dell’Editore il testo riproduce - tranne il paragrafo introduttivo, e con i soli aggiustamenti formali necessari a renderlo saggio autonomo - il capitolo 5 del volume monografico La neutralità necessaria. Liberalismo e religione nell’età del pluralismo(ETS Edizioni, Pisa, 2014.SOMMARIO: 1. Introduzione - 2. Su alcuni equivoci nel dibattito italiano sulla laicità - 3. Laicità e neutralità: un rapporto complicato - 4. La laicità della Corte costituzionale - 5. Conclusioni.ABSTRACT: This article, which is the chapter five of the book La neutralità necessaria. Liberalismo e religione nell’età del pluralismo (ETS, 2014, tries to identify what is the link between the idea of neutrality and secularism, suggesting that this link depends on the various possible interpretations of neutrality. Moreover, it is argued that we should avoid to reduce the issue to a nominal disputation about the meaning of the words and move our attention to the more fundamental problem about the relationship between politics and religion in a secular State.

  5. Mobilisation against International Human Rights: Re-domesticating the Dominican Citizenship Regime

    Directory of Open Access Journals (Sweden)

    Leiv Marsteintredet

    2016-04-01

    Full Text Available El artículo analiza la movilización doméstica en contra de la implementación de los derechos humanos internacionales en el ámbito del régimen de la nacionalidad en la República Dominicana. Mientras que los promotores de derechos humanos ganaron todas las batallas legales en el Sistema Interamericano de Derechos Humanos, los grupos que movilizaron en contra de los derechos humanos en la República Dominicana movilizaron más eficientemente a nivel doméstico, y ganaron la guerra en las instituciones dominicanas. El artículo demuestra que la movilización en contra de los derechos humanos fue una respuesta consciente a la Corte Interamericana de Derechos Humanos y el caso de 'Yean 'y 'Bosico'. La movilización unió a todos los actores políticos dominantes en el Congreso y en las cortes en acciones legales y políticas para redefinir y re-domesticar el control sobre el régimen de nacionalidad dominicano en base de una definición más restrictiva del 'ius soli. 'Esta movilización culminó con la salida de la República Dominicana de la Corte Interamericana de Derechos Humanos en 2014. El caso dominicano demuestra que una reacción negativa ("backlash" a derechos humanos puede demostrarse inicialmente de maneras muy sutiles y que para mejorar el cumplimiento a derechos humanos internacionales es imprescindible movilizar no sólo a nivel internacional sino también dentro de las instituciones domésticas. English: This article traces and analyses the domestic mobilisation against the implementation of international human rights with respect to the citizenship regime in the Dominican Republic. Whereas the human rights promoters won every legal battle on the right to citizenship in the Inter-American System of Human Rights, groups mobilising against human rights, the pro-violation constituency, were more effective domestically and won the war in all domestic institutions. As a response to the Inter-American Court of Human Rights and the

  6. Des tables pascales aux tables astronomiques et retour.

    Directory of Open Access Journals (Sweden)

    Max Lejbowicz

    2006-05-01

    Full Text Available L’article étudie la naissance et le développement du calendrier ecclésiastique chrétien, i. e. le comput, depuis les premiers témoignages de la célébration annuelle de la résurrection de Jésus jusqu’aux traductions des tables astronomiques arabes au xiie siècle. Il privilégie les procédures qui aboutissent à la détermination des dates pascales et à leur mise en forme tabulaire. Les analyses sont conduites à partir d’un double point de vue. L’un est scientifique. Il s’appuie sur les données astronomiques retenues par Ptolémée et sur l’apport de la tradition mathématique grecque au calcul par approximations. Les cycles soli-lunaires sont posés à partir des fractions continues et le cycle soli-hebdomadaire à partir du plus petit commun multiple. Le second point de vue est social : l’unification du comput participe à celle de la chrétienté comprise comme une configuration politico-religieuse. Deux conclusions s’imposent. Quelle que soit l’importance que la civilisation médiévale a attribuée au comput, il reste que : 1 / les Pâques sont porteuses de significations irréductibles aux techniques chronométriques qui inscrivent cette fête dans le déroulement de l’année ; 2 / ces techniques ont toutefois marqué profondément les curiosités intellectuelles des Latins et les ont préparé à accueillir avec ferveur les zīj et la numération de position.The article studies the birth and development of the Christian ecclesiastical calendar, i.e. the computus, from the first witnesses to the yearly celebration of the resurrection of Jesus to the translations of arabic astronomical tables in the 12th century. It focuses on the procedures which resulted in determinig the dates of Easter and their being put into tabular form. These analyses were undertaken from two perspectives. One was scientific, relying on the astronomical data preserved by Ptolemy and on the contribution of the Greek mathematical

  7. The opposition of Mars, 1998

    Science.gov (United States)

    McKim, R. J.

    1991-10-01

    This report is a discussion of 3,441 observations of the 1988 perihelic opposition covering the period 1987 November to 1989 June. The widespread utilisation of CCD techniques by both amateurs and professionals led to the detection of the finest surface details ever recorded from Earth. Of the albedo features, the Huygens crater was still visible as a dark spot in Iapigia, while Nepenthes continued to be faint or invisible. Solis Lacus, as in 1986 was large and complex, with Phasis (fading) and Gallinaria Silva nearby. The Acampsis 'canal' reappeared, and there was a secular darkening of part of the Memnonia desert. Mare Serenum was again shortened at its W end, and the Aetheria darkening persisted. Oxia Palus, Achilles Fons and Idaeus Fons were all large and dark. Around opposition the Martian atmosphere was very transparent, with a pronounced Blue Clearing. No global dust storm occurred at perihelion on August 11, but two important local storms were followed. One began in Hellas in June, and another started in Thaumasia in November. The earlier storm caused a sudden darkening of Mare Serpentis, Pandorae Fretum and the E end of Sinus Sabaeus. The N limb was marked by the N polar hood for most of the apparition: a N polar cap emerged in 1989. The S polar cap recession was in close accord with Slipher's mean curve, differing slightly but significantly from 1986, when the cap had been slightly smaller than average over the period Ls=210-250 . The fragmentation of the cap was studied in detail.

  8. The opposition of Mars, 1993

    Science.gov (United States)

    McKim, R. J.

    1995-06-01

    An account of the 1992-93 apparition, in which minor (but significant) albedo changes occurred on the martian surface. Solis Lacus remained large and dark, Phasis had faded but Gallinaria Silva remained visible. The Aetheria secular darkening persisted, the Huygens crater in Iapigia could= still be identified, Nepenthes continued to be invisible, and the W. (IAU) end of Mare Sirenum was still truncated. Pandorae Fretum was rather dark. The exceptional Idaeus Fons-Achillis Fons development on Nilokeras persisted. The Cerberus-Trivium Charontis complex continued the fading which had begun in 1990. The northern hemisphere was favourably displayed for the first time since 1984, and the areography of the Utopia-Boreosyrtis region was seen to be broadly unaltered. There was little dust activity, but the presently favoured Chryse source was again active on at least two occasions, on 1992 August 31 (Ls=3D 316deg) and October 2-3 (Ls=3D 333-33 4deg). This local activity continued with a minor dust storm in Elysium-Cebrenia that began on February 12 (Ls=3D 39deg). White cloud activity was seasonally normal. The observations covered the period of northern hemisphere winter and spring, and much of the regression of the North Polar Cap could be observed. Its behaviour closely followed the Dollfus-Baum historical mean from Ls=3D25 deg onwards, but the cap/hood was somewhat smaller than usual before then. This report of the work of 89 observers covers the period 1992 May to 1993 August.

  9. Objective and subjective hearing aid assessment outcomes.

    Science.gov (United States)

    Mendel, Lisa Lucks

    2007-12-01

    To determine whether specific sentence recognition assessments were sensitive enough to serve as objective outcome measurements that document subjective improvements in speech understanding with hearing aids. The Revised Speech Perception in Noise test (R-SPIN; R. C. Bilger, J. M. Nuetzel, W. M. Rabinowitz, & C. Rzeczkowski, 1984), the Hearing in Noise Test (HINT; M. Nilsson, S. D. Soli, & J. A. Sullivan, 1994), and the Quick Speech-in-Noise test (QuickSIN; Etymotic Research, 2001; M. C. Killion, P. A. Niquette, G. I. Gudmundsen, L. J. Revit, & S. Banerjee, 2004) were administered to 21 hearing aid users to determine whether the tests could adequately document improvements in speech understanding with hearing aids compared with the research participants' self-assessments of their own performance. Comparisons were made between unaided and aided performance on these sentence tests and on the Hearing Aid Performance Inventory (HAPI; B. E. Walden, M. Demorest, & E. Hepler, 1984). The R-SPIN, the HINT Quiet threshold, and the QuickSIN signal-to-noise ratio (SNR) loss were the most sensitive of the sentence recognition tests to objectively assess improvements in speech perception performance with hearing aids. Comparisons among the subjective and objective outcome measures documented that HAPI ratings improved as performance on the R-SPIN, the HINT Quiet threshold, and the QuickSIN SNR loss improved. Objective documentation of subjective impressions is essential for determining the efficacy of treatment outcomes in hearing aid fitting. The findings reported here more clearly define the relationship between objective and subjective outcome measures in an attempt to better define true hearing aid benefit.

  10. Effect of Low Salt Concentrations on Microbial Changes During Kimchi Fermentation Monitored by PCR-DGGE and Their Sensory Acceptance.

    Science.gov (United States)

    Ahmadsah, Lenny S F; Min, Sung-Gi; Han, Seon-Kyeong; Hong, Yeun; Kim, Hae-Yeong

    2015-12-28

    Various salt concentrations (1.0%, 1.3%, 1.6%, 1.9%, and 2.1% labeled as sample A, B, C, D, and E, respectively) were investigated for microbial diversity, identification of Lactic Acid Bacteria (LAB) in salted kimchi cabbage, prepared under laboratory conditions. These samples were stored at 4°C for 5 weeks in proper aluminum-metalized pouch packaging with calcium hydroxide gas absorber. A culture-independent method known as polymerase chain reaction - denaturing gradient gel electrophoresis was carried out to identify LAB distributions among various salt concentration samples that had identified 2 Weissella (W. confusa and W. soli), 1 Lactobacillus (Lb. sakei), and 3 Leuconostoc (Lc. mesenteroides, Lc. lactis, and Lc. gelidum) in the overall kimchi samples. The pH, titratable acidity, viable cell counts, and coliform counts were not affected by salt variations. In order to assess sensory acceptance, the conducted sensory evaluation using a 9-point hedonic scale had revealed that samples with 1.3% salt concentration (lower than the manufacturer's regular salt concentration) was more preferred, indicating that the use of 1.3% salt concentration was acceptable in normal kimchi fermentation for its quality and safety. Despite similarities in pH, titratable acidity, viable cell counts, coliform counts, and LAB distributions among the various salt concentrations of kimchi samples, the sample with 1.3% salt concentration was shown to be the most preferred, indicating that this salt concentration was suitable in kimchi production in order to reduce salt intake through kimchi consumptions.

  11. Identification and validation of human papillomavirus encoded microRNAs.

    Directory of Open Access Journals (Sweden)

    Kui Qian

    Full Text Available We report here identification and validation of the first papillomavirus encoded microRNAs expressed in human cervical lesions and cell lines. We established small RNA libraries from ten human papillomavirus associated cervical lesions including cancer and two human papillomavirus harboring cell lines. These libraries were sequenced using SOLiD 4 technology. We used the sequencing data to predict putative viral microRNAs and discovered nine putative papillomavirus encoded microRNAs. Validation was performed for five candidates, four of which were successfully validated by qPCR from cervical tissue samples and cell lines: two were encoded by HPV 16, one by HPV 38 and one by HPV 68. The expression of HPV 16 microRNAs was further confirmed by in situ hybridization, and colocalization with p16INK4A was established. Prediction of cellular target genes of HPV 16 encoded microRNAs suggests that they may play a role in cell cycle, immune functions, cell adhesion and migration, development, and cancer. Two putative viral target sites for the two validated HPV 16 miRNAs were mapped to the E5 gene, one in the E1 gene, two in the L1 gene and one in the LCR region. This is the first report to show that papillomaviruses encode their own microRNA species. Importantly, microRNAs were found in libraries established from human cervical disease and carcinoma cell lines, and their expression was confirmed in additional tissue samples. To our knowledge, this is also the first paper to use in situ hybridization to show the expression of a viral microRNA in human tissue.

  12. De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity

    Directory of Open Access Journals (Sweden)

    Matvienko Marta

    2011-08-01

    Full Text Available Abstract Background Among next generation sequence technologies, platforms such as Illumina and SOLiD produce short reads but with higher coverage and lower cost per sequenced nucleotide than 454 or Sanger. A challenge now is to develop efficient strategies to use short-read length platforms for de novo assembly and marker development. The scope of this study was to develop a de novo assembly of carrot ESTs from multiple genotypes using the Illumina platform, and to identify polymorphisms. Results A de novo assembly of transcriptome sequence from four genetic backgrounds produced 58,751 contigs and singletons. Over 50% of these assembled sequences were annotated allowing detection of transposable elements and new carrot anthocyanin genes. Presence of multiple genetic backgrounds in our assembly allowed the identification of 114 computationally polymorphic SSRs, and 20,058 SNPs at a depth of coverage of 20× or more. Polymorphisms were predominantly between inbred lines except for the cultivated x wild RIL pool which had high intra-sample polymorphism. About 90% and 88% of tested SSR and SNP primers amplified a product, of which 70% and 46%, respectively, were of the expected size. Out of verified SSR and SNP markers 84% and 82% were polymorphic. About 25% of SNPs genotyped were polymorphic in two diverse mapping populations. Conclusions This study confirmed the potential of short read platforms for de novo EST assembly and identification of genetic polymorphisms in carrot. In addition we produced the first large-scale transcriptome of carrot, a species lacking genomic resources.

  13. Harnessing cross-species alignment to discover SNPs and generate a draft genome sequence of a bighorn sheep (Ovis canadensis).

    Science.gov (United States)

    Miller, Joshua M; Moore, Stephen S; Stothard, Paul; Liao, Xiaoping; Coltman, David W

    2015-05-20

    Whole genome sequences (WGS) have proliferated as sequencing technology continues to improve and costs decline. While many WGS of model or domestic organisms have been produced, a growing number of non-model species are also being sequenced. In the absence of a reference, construction of a genome sequence necessitates de novo assembly which may be beyond the ability of many labs due to the large volumes of raw sequence data and extensive bioinformatics required. In contrast, the presence of a reference WGS allows for alignment which is more tractable than assembly. Recent work has highlighted that the reference need not come from the same species, potentially enabling a wide array of species WGS to be constructed using cross-species alignment. Here we report on the creation a draft WGS from a single bighorn sheep (Ovis canadensis) using alignment to the closely related domestic sheep (Ovis aries). Two sequencing libraries on SOLiD platforms yielded over 865 million reads, and combined alignment to the domestic sheep reference resulted in a nearly complete sequence (95% coverage of the reference) at an average of 12x read depth (104 SD). From this we discovered over 15 million variants and annotated them relative to the domestic sheep reference. We then conducted an enrichment analysis of those SNPs showing fixed differences between the reference and sequenced individual and found significant differences in a number of gene ontology (GO) terms, including those associated with reproduction, muscle properties, and bone deposition. Our results demonstrate that cross-species alignment enables the creation of novel WGS for non-model organisms. The bighorn sheep WGS will provide a resource for future resequencing studies or comparative genomics.

  14. Integrating sequencing technologies in personal genomics: optimal low cost reconstruction of structural variants.

    Directory of Open Access Journals (Sweden)

    Jiang Du

    2009-07-01

    Full Text Available The goal of human genome re-sequencing is obtaining an accurate assembly of an individual's genome. Recently, there has been great excitement in the development of many technologies for this (e.g. medium and short read sequencing from companies such as 454 and SOLiD, and high-density oligo-arrays from Affymetrix and NimbelGen, with even more expected to appear. The costs and sensitivities of these technologies differ considerably from each other. As an important goal of personal genomics is to reduce the cost of re-sequencing to an affordable point, it is worthwhile to consider optimally integrating technologies. Here, we build a simulation toolbox that will help us optimally combine different technologies for genome re-sequencing, especially in reconstructing large structural variants (SVs. SV reconstruction is considered the most challenging step in human genome re-sequencing. (It is sometimes even harder than de novo assembly of small genomes because of the duplications and repetitive sequences in the human genome. To this end, we formulate canonical problems that are representative of issues in reconstruction and are of small enough scale to be computationally tractable and simulatable. Using semi-realistic simulations, we show how we can combine different technologies to optimally solve the assembly at low cost. With mapability maps, our simulations efficiently handle the inhomogeneous repeat-containing structure of the human genome and the computational complexity of practical assembly algorithms. They quantitatively show how combining different read lengths is more cost-effective than using one length, how an optimal mixed sequencing strategy for reconstructing large novel SVs usually also gives accurate detection of SNPs/indels, how paired-end reads can improve reconstruction efficiency, and how adding in arrays is more efficient than just sequencing for disentangling some complex SVs. Our strategy should facilitate the sequencing of

  15. Targeted resequencing of regulatory regions at schizophrenia risk loci: Role of rare functional variants at chromatin repressive states.

    Science.gov (United States)

    González-Peñas, Javier; Amigo, Jorge; Santomé, Luis; Sobrino, Beatriz; Brenlla, Julio; Agra, Santiago; Paz, Eduardo; Páramo, Mario; Carracedo, Ángel; Arrojo, Manuel; Costas, Javier

    2016-07-01

    There is mounting evidence that regulatory variation plays an important role in genetic risk for schizophrenia. Here, we specifically search for regulatory variants at risk by sequencing promoter regions of twenty-three genes implied in schizophrenia by copy number variant or genome-wide association studies. After strict quality control, a total of 55,206bp per sample were analyzed in 526 schizophrenia cases and 516 controls from Galicia, NW Spain, using the Applied Biosystems SOLiD System. Variants were filtered based on frequency from public databases, chromatin states from the RoadMap Epigenomics Consortium at tissues relevant for schizophrenia, such as fetal brain, mid-frontal lobe, and angular gyrus, and prediction of functionality from RegulomeDB. The proportion of rare variants at polycomb repressive chromatin state at relevant tissues was higher in cases than in controls. The proportion of rare variants with predicted regulatory role was significantly higher in cases than in controls (P=0.0028, OR=1.93, 95% C.I.=1.23-3.04). Combination of information from both sources led to the identification of an excess of carriers of rare variants with predicted regulatory role located at polycomb repressive chromatin state at relevant tissues in cases versus controls (P=0.0016, OR=19.34, 95% C.I.=2.45-2495.26). The variants are located at two genes affected by the 17q12 copy number variant, LHX1 and HNF1B. These data strongly suggest that a specific epigenetic mechanism, chromatin remodeling by histone modification during early development, may be impaired in a subset of schizophrenia patients, in agreement with previous data. Copyright © 2016 Elsevier B.V. All rights reserved.

  16. A comensalidade do terror: Uma comparação de práticas sociais entre Argentina e Colômbia

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    Santiago Alvarez

    2012-01-01

    Full Text Available Este artigo propõe-se a discutir a construção de laços sociais de pertencimento, amizade e cumplicidade entre grupos perpetradores de violência e geradores de terror. Para isso, baseia-se em dois exemplos dessemelhantes: de um lado, a pesquisa de campo em uma comunidade campesina na Colômbia; de outro, um massacre político durante a ditadura militar na Argentina. Em ambos, considera-se a violência não como algo desagregador ou disruptivo, mas construtor de laços entre os agressores. Certos atos ritualizados de solidariedade e comensalidade ao mesmo tempo reforçam os laços de cumplicidade em um grupo e fazem seus membros descarregar a violência sobre outros. The Commensality of Terror: A Comparison Between Social Practices in Argentina and Colombia intends to discuss the construction of social belonging, friendship and complicity between groups that per­petrate violence and generate terror. It is based on two dissimilar examples: a fieldwork in a peasant community in Colombia and a political massacre during the military dictatorship in Argentina. In both cases, we approach vio­lence not as something disintegrator or disruptive, but as something capable of creating bonds between the ag­gressors. Certain ritualized acts of commensality and soli­darity both reinforce the bonds of complicity in a group and make its members turn the violence against others.Key words: commensality, violence, Argentina, Colombia, friendship bonds

  17. Evaluation of biostimulation and Tween 80 addition for the bioremediation of long-term DDT-contaminated soil.

    Science.gov (United States)

    Betancur-Corredor, Bibiana; Pino, Nancy J; Cardona, Santiago; Peñuela, Gustavo A

    2015-02-01

    The bioremediation of a long-term contaminated soil through biostimulation and surfactant addition was evaluated. The concentrations of 1,1,1-trichloro-2,2-bis(4-chlorophenyl) ethane (DDT) and its metabolites 1,1-dichloro-2,2-bis(4-chlorophenyl) ethane (DDD) and 1,1-dichloro-2,2-bis(4-chlorophenyl) ethylene (DDE) were monitored during an 8-week remediation process. Physicochemical characterization of the treated soil was performed before and after the bioremediation process. The isolation and identification of predominant microorganisms during the remediation process were also carried out. The efficiency of detoxification was evaluated after each bioremediation protocol. Humidity and pH and the heterotrophic microorganism count were monitored weekly. The DDT concentration was reduced by 79% after 8 weeks via biostimulation with surfactant addition (B+S) and 94.3% via biostimulation alone (B). Likewise, the concentrations of the metabolites DDE and DDD were reduced to levels below the quantification limits. The microorganisms isolated during bioremediation were identified as Bacillus thuringiensis, Flavobacterium sp., Cuprivadius sp., Variovorax soli, Phenylobacterium sp. and Lysobacter sp., among others. Analysis with scanning electron microscopy (SEM) allowed visualization of the colonization patterns of soil particles. The toxicity of the soil before and after bioremediation was evaluated using Vibrio fischeri as a bioluminescent sensor. A decrease in the toxic potential of the soil was verified by the increase of the concentration/effect relationship EC50 to 26.9% and 27.2% for B+S and B, respectively, compared to 0.4% obtained for the soil before treatment and 2.5% by natural attenuation after 8 weeks of treatment. Copyright © 2014. Published by Elsevier B.V.

  18. Fish the ChIPs: a pipeline for automated genomic annotation of ChIP-Seq data

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    Minucci Saverio

    2011-10-01

    Full Text Available Abstract Background High-throughput sequencing is generating massive amounts of data at a pace that largely exceeds the throughput of data analysis routines. Here we introduce Fish the ChIPs (FC, a computational pipeline aimed at a broad public of users and designed to perform complete ChIP-Seq data analysis of an unlimited number of samples, thus increasing throughput, reproducibility and saving time. Results Starting from short read sequences, FC performs the following steps: 1 quality controls, 2 alignment to a reference genome, 3 peak calling, 4 genomic annotation, 5 generation of raw signal tracks for visualization on the UCSC and IGV genome browsers. FC exploits some of the fastest and most effective tools today available. Installation on a Mac platform requires very basic computational skills while configuration and usage are supported by a user-friendly graphic user interface. Alternatively, FC can be compiled from the source code on any Unix machine and then run with the possibility of customizing each single parameter through a simple configuration text file that can be generated using a dedicated user-friendly web-form. Considering the execution time, FC can be run on a desktop machine, even though the use of a computer cluster is recommended for analyses of large batches of data. FC is perfectly suited to work with data coming from Illumina Solexa Genome Analyzers or ABI SOLiD and its usage can potentially be extended to any sequencing platform. Conclusions Compared to existing tools, FC has two main advantages that make it suitable for a broad range of users. First of all, it can be installed and run by wet biologists on a Mac machine. Besides it can handle an unlimited number of samples, being convenient for large analyses. In this context, computational biologists can increase reproducibility of their ChIP-Seq data analyses while saving time for downstream analyses. Reviewers This article was reviewed by Gavin Huttley, George

  19. Shotgun metagenomic data reveals signifcant abundance but low diversity of Candidatus Scalindua marine anammox bacteria in the Arabian Sea oxygen minimum zone

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    laura eVillanueva

    2014-02-01

    Full Text Available Anaerobic ammonium oxidizing (anammox bacteria are responsible for a significant portion of the loss of fixed nitrogen from the oceans, making them important players in the global nitrogen cycle. To date, marine anammox bacteria found in both water columns and sediments worldwide belong almost exclusively to Candidatus Scalindua species. Recently the genome assembly of a marine anammox enrichment culture dominated by Candidatus Scalindua profunda became available and can now be used as a template to study metagenome data obtained from various oxygen minimum zones. Here, we sequenced genomic DNA from suspended particulate matter recovered at the upper (170 m deep and center (600 m area of the oxygen minimum zone in the Arabian Sea by SOLiD and Ion Torrent technology. The genome of Candidatus Scalindua profunda served as a template to collect reads. Based on the mapped reads marine anammox Abundance was estimated to be at least 0.4% in the upper and 1.7% in the center area. Single nucleotide variation (SNV analysis was performed to assess diversity of the Candidatus Scalindua populations. Most highly covered were the two diagnostic anammox genes hydrazine synthase (scal_01318c, hzsA and hydrazine dehydrogenase (scal_03295, hdh, while other genes involved in anammox metabolism (narGH, nirS, amtB, focA and ACS had a lower coverage but could still be assembled and analyzed. The results show that Candidatus Scalindua is abundantly present in the Arabian Sea OMZ, but that the diversity within the ecosystem is relatively low.

  20. Rhodococcus agglutinans sp. nov., an actinobacterium isolated from a soil sample.

    Science.gov (United States)

    Guo, Qian-Qian; Ming, Hong; Meng, Xiao-Ling; Duan, Yan-Yan; Gao, Rui; Zhang, Jian-Xin; Huang, Jian-Rong; Li, Wen-Jun; Nie, Guo-Xing

    2015-05-01

    A Gram-positive, aerobic, non-motile and non-spore forming strain, designated CFH S0262(T), was isolated from a soil sample collected from Catba island in Halong Bay, Vietnam. A polyphasic approach was used to study the taxonomic position of this new isolate. Phylogenetic analyses based on 16S rRNA gene sequence showed that strain CFH S0262(T) belongs to the genus Rhodococcus and clustered with Rhodococcus soli DSD51W(T), Rhodococcus hoagii NBRC 103062(T), Rhodococcus defluvii Call(T) and Rhodococcus kunmingensis YIM 45607(T) (98.7, 98.5, 97.9 and 97.6% similarities, respectively). Strain CFH S0262(T) could grow in the presence of NaCl (0-4%, optimum 0-3%), at pH 6.0-8.0 (optimum, pH 7.0) and at 10-40 °C (optimum, 28 °C). The predominant menaquinones of strain CFH S0262(T) were identified as MK-8 (H2) and MK-8 (H4). The major fatty acids (≥10%) were found to be C(16:0) and C(18:1)ω9c. The polar lipids detected were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannoside, a glycolipid and two unidentified phospholipids. The DNA G+C content was determined to be 71.4 mol%. Based on a comparative analysis of phenotypic and genotypic characteristics, in combination with low values of DNA-DNA hybridization between strain CFH S0262(T) and its closest neighbours, it is proposed that strain CFH S0262(T) represents a novel species of the genus Rhodococcus, for which the name Rhodococcus agglutinans sp. nov., is proposed, with the type strain CFH S0262(T) (=CCTCC AB2014297(T)=KCTC 39118(T)).

  1. High-throughput sequencing of microRNAs in peripheral blood mononuclear cells: identification of potential weight loss biomarkers.

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    Fermín I Milagro

    Full Text Available INTRODUCTION: MicroRNAs (miRNAs are being increasingly studied in relation to energy metabolism and body composition homeostasis. Indeed, the quantitative analysis of miRNAs expression in different adiposity conditions may contribute to understand the intimate mechanisms participating in body weight control and to find new biomarkers with diagnostic or prognostic value in obesity management. OBJECTIVE: The aim of this study was the search for miRNAs in blood cells whose expression could be used as prognostic biomarkers of weight loss. METHODS: Ten Caucasian obese women were selected among the participants in a weight-loss trial that consisted in following an energy-restricted treatment. Weight loss was considered unsuccessful when 5% (responders. At baseline, total miRNA isolated from peripheral blood mononuclear cells (PBMC was sequenced with SOLiD v4. The miRNA sequencing data were validated by RT-PCR. RESULTS: Differential baseline expression of several miRNAs was found between responders and non-responders. Two miRNAs were up-regulated in the non-responder group (mir-935 and mir-4772 and three others were down-regulated (mir-223, mir-224 and mir-376b. Both mir-935 and mir-4772 showed relevant associations with the magnitude of weight loss, although the expression of other transcripts (mir-874, mir-199b, mir-766, mir-589 and mir-148b also correlated with weight loss. CONCLUSIONS: This research addresses the use of high-throughput sequencing technologies in the search for miRNA expression biomarkers in obesity, by determining the miRNA transcriptome of PBMC. Basal expression of different miRNAs, particularly mir-935 and mir-4772, could be prognostic biomarkers and may forecast the response to a hypocaloric diet.

  2. The complete genomic sequence of pepper yellow leaf curl virus (PYLCV and its implications for our understanding of evolution dynamics in the genus polerovirus.

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    Aviv Dombrovsky

    Full Text Available We determined the complete sequence and organization of the genome of a putative member of the genus Polerovirus tentatively named Pepper yellow leaf curl virus (PYLCV. PYLCV has a wider host range than Tobacco vein-distorting virus (TVDV and has a close serological relationship with Cucurbit aphid-borne yellows virus (CABYV (both poleroviruses. The extracted viral RNA was subjected to SOLiD next-generation sequence analysis and used as a template for reverse transcription synthesis, which was followed by PCR amplification. The ssRNA genome of PYLCV includes 6,028 nucleotides encoding six open reading frames (ORFs, which is typical of the genus Polerovirus. Comparisons of the deduced amino acid sequences of the PYLCV ORFs 2-4 and ORF5, indicate that there are high levels of similarity between these sequences to ORFs 2-4 of TVDV (84-93% and to ORF5 of CABYV (87%. Both PYLCV and Pepper vein yellowing virus (PeVYV contain sequences that point to a common ancestral polerovirus. The recombination breakpoint which is located at CABYV ORF3, which encodes the viral coat protein (CP, may explain the CABYV-like sequences found in the genomes of the pepper infecting viruses PYLCV and PeVYV. Two additional regions unique to PYLCV (PY1 and PY2 were identified between nucleotides 4,962 and 5,061 (ORF 5 and between positions 5,866 and 6,028 in the 3' NCR. Sequence analysis of the pepper-infecting PeVYV revealed three unique regions (Pe1-Pe3 with no similarity to other members of the genus Polerovirus. Genomic analyses of PYLCV and PeVYV suggest that the speciation of these viruses occurred through putative recombination event(s between poleroviruses co-infecting a common host(s, resulting in the emergence of PYLCV, a novel pathogen with a wider host range.

  3. Niabella hibiscisoli sp. nov., isolated from soil of a Rose of Sharon garden.

    Science.gov (United States)

    Ngo, Hien T T; Trinh, Huan; Yan, Zheng-Fei; Moya, Gabriela; Kook, MooChang; Yi, Tae-Hoo

    2017-04-01

    A Gram-stain-negative, strictly aerobic, non-motile, rod-shaped and yellow-pigmented bacterium, designated strain THG-DN5.5T, was isolated from soil of a Rose of Sharon garden in Daejeon, South Korea. According to 16S rRNA gene sequence comparisons, strain THG-DN5.5T was found to be most closely related to Niabella yanshanensis CCBAU 05354T (97.7 % sequence similarity), Niabella ginsengisoli GR10-1T (97.0 %), 'Niabella terrae' ICM 1-15 (96.0 %), Niabella soli DSM 19437T (95.7 %) and Niabella aquatica RP-2T (95.6 %). The DNA-DNA relatedness between strain THG-DN5.5T and its phylogenetically closest neighbours was below 50.0 %. The DNA G+C content was 43.1 mol%. The major polar lipid of strain THG-DN5.5T was found to be phosphatidylethanolamine. The major fatty acids were identified as C16 : 0, iso-C15 : 0, iso-C15 : 1 G, and iso-C17 : 0 3-OH. MK-7 was the only menaquinone present. These data supported the affiliation of strain THG-DN5.5T to the genus Niabella. Strain THG-DN5.5T was distinguished from related species of the genus Niabellaby physiological and biochemical tests. In conclusion, strain THG-DN5.5T represents a novel species of the genus Niabella, for which the name Niabella hibiscisolisp. nov. is proposed. The type strain is THG-DN5.5T (=KACC 18857T=CCTCC AB 2016086T).

  4. Cage subsidence after anterior cervical discectomy and fusion using a cage alone or combined with anterior plate fixation.

    Science.gov (United States)

    Pinder, E M; Sharp, D J

    2016-04-01

    To compare the extent of cage subsidence after anterior cervical discectomy and fusion (ACDF) using a cage alone or combined with anterior plate fixation, and to assess the effect of end plate removal on cage subsidence. Records of 23 men and 13 women aged 32 to 82 (mean, 54) years who underwent ACDF for 61 levels using the Solis cage alone (n=46) or combined with anterior plate fixation (n=15) were reviewed. The extent of cage subsidence was determined by comparing immediately postoperative (within one week) with final follow-up radiographs. Cage subsidence was defined as the sum subsidence of the superior and inferior part of the cage into the vertebral body. Mild and major cage subsidence was defined as ≤2 mm and >2 mm, respectively. Patients who underwent ACDF using a cage alone or combined with anterior plate fixation were comparable in terms of age, gender, follow-up duration, and number of levels decompressed. Cage subsidence occurred in 33 (54%) of the 61 levels decompressed. In the cage alone group, the extent of cage subsidence was greater (1.68 vs. 0.57 mm, p=0.039) and the rate of major cage subsidence was higher (28% vs. 7%, p=0.08). The inferior part of the cage was more vulnerable to subsidence compared with the superior part (median subsidence: 3.0 vs. 1.4 mm, psubsidence occurred more often when the end plate was removed rather than preserved (58% vs. 18%, psubsidence was greater after ACDF with cage alone. Cage subsidence occurred more often when the end plate was removed. Additional anterior plate fixation is recommended when the end plate is removed.

  5. Discovery of posttranscriptional regulatory RNAs using next generation sequencing technologies.

    Science.gov (United States)

    Gelderman, Grant; Contreras, Lydia M

    2013-01-01

    Next generation sequencing (NGS) has revolutionized the way by which we engineer metabolism by radically altering the path to genome-wide inquiries. This is due to the fact that NGS approaches offer several powerful advantages over traditional methods that include the ability to fully sequence hundreds to thousands of genes in a single experiment and simultaneously detect homozygous and heterozygous deletions, alterations in gene copy number, insertions, translocations, and exome-wide substitutions that include "hot-spot mutations." This chapter describes the use of these technologies as a sequencing technique for transcriptome analysis and discovery of regulatory RNA elements in the context of three main platforms: Illumina HiSeq, 454 pyrosequencing, and SOLiD sequencing. Specifically, this chapter focuses on the use of Illumina HiSeq, since it is the most widely used platform for RNA discovery and transcriptome analysis. Regulatory RNAs have now been found in all branches of life. In bacteria, noncoding small RNAs (sRNAs) are involved in highly sophisticated regulatory circuits that include quorum sensing, carbon metabolism, stress responses, and virulence (Gorke and Vogel, Gene Dev 22:2914-2925, 2008; Gottesman, Trends Genet 21:399-404, 2005; Romby et al., Curr Opin Microbiol 9:229-236, 2006). Further characterization of the underlying regulation of gene expression remains poorly understood given that it is estimated that over 60% of all predicted genes remain hypothetical and the 5' and 3' untranslated regions are unknown for more than 90% of the genes (Siegel et al., Trends Parasitol 27:434-441, 2011). Importantly, manipulation of the posttranscriptional regulation that occurs at the level of RNA stability and export, trans-splicing, polyadenylation, protein translation, and protein stability via untranslated regions (Clayton, EMBO J 21:1881-1888, 2002; Haile and Papadopoulou, Curr Opin Microbiol 10:569-577, 2007) could be highly beneficial to metabolic

  6. Mucilaginibacter carri sp. nov., isolated from a car air conditioning system.

    Science.gov (United States)

    Kim, Dong-Uk; Lee, Hyosun; Kim, Hyun; Kim, Song-Gun; Park, So Yoon; Ka, Jong-Ok

    2016-04-01

    A Gram-stain-negative, pink bacterial strain, designated PR0008KT, was isolated from an automobile evaporator core in Korea. The cells were obligately aerobic and rod-shaped. The strain grew at 10-40 °C (optimum, 20 °C), at pH 5-8 (optimum, 7), and in the presence of 0-1.5% (w/v) NaCl. Phylogenetically, the strain was closely related to members of the genus Mucilaginibacter (93.4-97.0% 16S rRNA sequence similarities) and showed a high sequence similarity with Mucilaginibacter litoreus BR-18T, Mucilaginibacter lutimaris BR-3T and Mucilaginibacter soli R9-65T (97.0%, 96.9% and 96.9% 16S rRNA sequence similarity, respectively). It contained summed feature 3 (C16:1ω7c and/or C16:1ω6c), C16 : 0, iso-C17:0 3-OH and C16:0 as the predominant fatty acids and MK-7 as the major menaquinone. The polar lipids were phosphatidylethanolamine, one unknown aminophospholipid, two unknown aminolipids and two unknown polar lipids. The DNA G+C content of this strain was 47.4 mol%. Based on the phenotypic, genotypic and chemotaxonomic data, strain PR0008KT represents a novel species in the genus Mucilaginibacter, for which the name Mucilaginibacter carri sp. nov. (=KACC 17938T=NBRC 111539T) is proposed.

  7. A comprehensive survey of miRNA repertoire and 3' addition events in the placentas of patients with pre-eclampsia from high-throughput sequencing.

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    Li Guo

    Full Text Available To gain insight into potential roles of isomiR spectrum and isomiRs with 3' additions in pre-eclampsia, we performed a comprehensive survey of miRNA repertoire and 3' addition events from placental samples with different degrees of pre-eclampsia by applying SOLiD sequencing platform.Over 30% isomiRs were detected with 3' non-template additional nucleotides, especially for additional nucleotide of adenosine. However, these modified isomiRs showed a lower percentage of total miRNA expression (<15%. Generally, 1-3 abundant isomiRs from a given miRNA locus were identified, but none of them was detected with 3' additions. Different miRNAs indicated various isomiR spectrums and expression patterns. The most abundant isomiR spectrum, isomiR profile and expression pattern always were stability, but herein we found several exceptions across samples, especially between normal and diseased samples. At isomiR level, we detected a distinct subset of differentially expressed modified isomiRs between normal and diseased samples or between mild and severe samples. Gene Ontology analysis of their experimentally validated target genes revealed enrichment for specific biological process categories.The phenomenon of multiple isomiRs, especially for isomiRs with 3' additions, is not a random event during pre-miRNA processing. Varieties of isomiRs and expression patterns reveal potential functional implication and should be taken into account. The study enriches association of miRNAs and human disease, including potential roles of various miRNA variants and 3' addition events.

  8. Maternal Plasma miRNAs Expression in Preeclamptic Pregnancies

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    Hailing Li

    2013-01-01

    Full Text Available Objective. Preeclampsia (PE is a pregnancy-specific syndrome and one of the leading causes of maternal and fetal morbidity and mortality. The pathophysiological mechanisms of PE remain poorly known. Recently, circulating miRNAs are considered as potential useful noninvasive biomarkers. The aim of this study was to identify differentially expressed plasma miRNAs in preeclamptic pregnancies compared with normal pregnancies. Methods. Maternal plasma miRNA expression profiles were detected by SOLiD sequencing. Differential expressions between mPE/sPE and control group were found. Next, four differentially expressed plasma miRNAs were chosen to validate their expression in other large scale samples by real-time PCR. Results. In terms of sequencing results, we identified that 51 miRNAs were differentially expressed. Four differentially expressed plasma miRNAs (miR-141, miR-144, miR-221, and miR-29a were selected to validate the sequencing results. RT-PCR data confirmed the reliability of sequencing results. The further statistical analysis showed that maternal plasma miR-141 and miR-29a are significantly overexpressed in mPE (P<0.05. Maternal plasma miR-144 is significantly underexpressed in mPE and sPE (P<0.05. Conclusions. Results showed that there were differentially expressed maternal plasma miRNAs in patients with preeclampsia. These plasma miRNAs might be used as notable biomarkers for diagnosis of preeclampsia.

  9. Flat-Fielding Solar Spectroscopic Images

    Science.gov (United States)

    Jones, H. P.

    1999-05-01

    A key problem for the analysis of the spectral-spatial datacubes produced by the many operational and planned solar spectroscopic imagers (e.g., SUMER and CDS on SOHO; the SOLIS Vector Spectromagnetograph (VSM)) is how to obtain a suitable "flat-field" image for fixed-pattern correction of each slice (long-slit spectrum) of the data. We describe here some algorithms developed for flat-fielding NASA/NSO Spectromagnetograph (SPM) and NSO Near-Infrared Magnograph (NIM 1) data both for analysis of He I 1083 nm data and as prototype procedures for the future VSM. The 1083 nm line is a severe test since the line is very weak, and similarly stringent requirements need to be met for precision spectral polarimetry from the VSM. The procedures remove spectrum lines from ``raw'' flat-fields derived by integrating spectra as the solar image is scanned to give an equivalent exposure to each spatial element along the spectrograph slit with the exact instrument configuration that is used in the observations. We find this preferable to other techniques such as moving the grating to nearby continuum or image defocussing, both of which change fringe patterns and/or the way optical impurities such as dust are imaged. An iterative fitting procedure is described which works well on the SPM data but is less satisfactory for NIM 1 because, in the latter case, the detector readout introduces a columnar pattern parallel to the spectrum lines which is removed by the SPM algorithm. The orientation of read-out and spectrum will be the same as NIM-1 for the VSM. We describe initial attempts to use a new least-squares spline technique (Thijsse, Hollanders, and Hendrikse, 1998, Computers in Physics 12, 393) to address this difficulty.

  10. Samspill mellom barn og voksne ved måltidet. Muligheter for medlæring?

    Directory of Open Access Journals (Sweden)

    Berit Bae

    2009-03-01

    Full Text Available I denne artikkelen rettes oppmerksomheten mot samspill og ikke-intendert læring, dvs. aspekter ved
    den erfarte læreplanen, basert på samspill ved måltidet. Det som analyseres er medlæring, dvs. prosesser som er
    innbakt i og foregår sammen med andre aktiviteter. Empirisk sett tar framstillingen utgangspunkt i en mikroana-
    lytisk undersøkelse av dialoger mellom førskolelærer og barn i to barnehager i Oslo, hvor samspill i tre ulike situ-
    asjoner, derav måltidet, ble videofilmet med jevne mellomrom i løpet av et år. Ut fra analyse av videomaterialet
    ble det utviklet to kategorier for å skille mellom samspill av ulik kvalitet, nemlig romslige og trange mønstre (Bae,
    2004, 2005, 2007. I denne artikkelen vil framstillingen bli begrenset til romslige mønstre. Problemstillingen som
    drøftes er: Hvilke medlæringsmuligheter inneholder romslige samspill for de barna som er aktivt involvert, og for
    de som observerer samspillet? Fortolkende analyser viser at i tillegg til det som har kommet fram i tidligere forsk-
    ning om kunnskap om ernæring, gode spisevaner og bordskikk etc., kan måltidet også romme medlæringsmulig-
    heter om samtaleferdigheter og samarbeide rundt praktiske ting. Uten at dette blir eksplisitt fokusert, så innehol-
    der måltidet også muligheter for læring angående verdsetting av forskjellighet og mangfold, samt det å vise soli-
    daritet i forhold til andre.

  11. Development of Prediction Model and Experimental Validation in Predicting the Curcumin Content of Turmeric (Curcuma longa L.).

    Science.gov (United States)

    Akbar, Abdul; Kuanar, Ananya; Joshi, Raj K; Sandeep, I S; Mohanty, Sujata; Naik, Pradeep K; Mishra, Antaryami; Nayak, Sanghamitra

    2016-01-01

    The drug yielding potential of turmeric ( Curcuma longa L.) is largely due to the presence of phyto-constituent 'curcumin.' Curcumin has been found to possess a myriad of therapeutic activities ranging from anti-inflammatory to neuroprotective. Lack of requisite high curcumin containing genotypes and variation in the curcumin content of turmeric at different agro climatic regions are the major stumbling blocks in commercial production of turmeric. Curcumin content of turmeric is greatly influenced by environmental factors. Hence, a prediction model based on artificial neural network (ANN) was developed to map genome environment interaction basing on curcumin content, soli and climatic factors from different agroclimatic regions for prediction of maximum curcumin content at various sites to facilitate the selection of suitable region for commercial cultivation of turmeric. The ANN model was developed and tested using a data set of 119 generated by collecting samples from 8 different agroclimatic regions of Odisha. The curcumin content from these samples was measured that varied from 7.2% to 0.4%. The ANN model was trained with 11 parameters of soil and climatic factors as input and curcumin content as output. The results showed that feed-forward ANN model with 8 nodes (MLFN-8) was the most suitable one with R 2 value of 0.91. Sensitivity analysis revealed that minimum relative humidity, altitude, soil nitrogen content and soil pH had greater effect on curcumin content. This ANN model has shown proven efficiency for predicting and optimizing the curcumin content at a specific site.

  12. Whole Genome Sequence of the Treponema pallidum subsp. endemicum Strain Bosnia A: The Genome Is Related to Yaws Treponemes but Contains Few Loci Similar to Syphilis Treponemes

    Science.gov (United States)

    Zobaníková, Marie; Čejková, Darina; Fulton, Lucinda L.; Chen, Lei; Giacani, Lorenzo; Centurion-Lara, Arturo; Bruisten, Sylvia M.; Sodergren, Erica; Weinstock, George M.; Šmajs, David

    2014-01-01

    Background T. pallidum subsp. endemicum (TEN) is the causative agent of bejel (also known as endemic syphilis). Clinical symptoms of syphilis and bejel are overlapping and the epidemiological context is important for correct diagnosis of both diseases. In contrast to syphilis, caused by T. pallidum subsp. pallidum (TPA), TEN infections are usually spread by direct contact or contaminated utensils rather than by sexual contact. Bejel is most often seen in western Africa and in the Middle East. The strain Bosnia A was isolated in 1950 in Bosnia, southern Europe. Methodology/Principal Findings The complete genome of the Bosnia A strain was amplified and sequenced using the pooled segment genome sequencing (PSGS) method and a combination of three next-generation sequencing techniques (SOLiD, Roche 454, and Illumina). Using this approach, a total combined average genome coverage of 513× was achieved. The size of the Bosnia A genome was found to be 1,137,653 bp, i.e. 1.6–2.8 kbp shorter than any previously published genomes of uncultivable pathogenic treponemes. Conserved gene synteny was found in the Bosnia A genome compared to other sequenced syphilis and yaws treponemes. The TEN Bosnia A genome was distinct but very similar to the genome of yaws-causing T. pallidum subsp. pertenue (TPE) strains. Interestingly, the TEN Bosnia A genome was found to contain several sequences, which so far, have been uniquely identified only in syphilis treponemes. Conclusions/Significance The genome of TEN Bosnia A contains several sequences thought to be unique to TPA strains; these sequences very likely represent remnants of recombination events during the evolution of TEN treponemes. This finding emphasizes a possible role of repeated horizontal gene transfer between treponemal subspecies in shaping the Bosnia A genome. PMID:25375929

  13. High-throughput sequencing of microRNAs in peripheral blood mononuclear cells: identification of potential weight loss biomarkers.

    Science.gov (United States)

    Milagro, Fermín I; Miranda, Jonatan; Portillo, María P; Fernandez-Quintela, Alfredo; Campión, Javier; Martínez, J Alfredo

    2013-01-01

    MicroRNAs (miRNAs) are being increasingly studied in relation to energy metabolism and body composition homeostasis. Indeed, the quantitative analysis of miRNAs expression in different adiposity conditions may contribute to understand the intimate mechanisms participating in body weight control and to find new biomarkers with diagnostic or prognostic value in obesity management. The aim of this study was the search for miRNAs in blood cells whose expression could be used as prognostic biomarkers of weight loss. Ten Caucasian obese women were selected among the participants in a weight-loss trial that consisted in following an energy-restricted treatment. Weight loss was considered unsuccessful when 5% (responders). At baseline, total miRNA isolated from peripheral blood mononuclear cells (PBMC) was sequenced with SOLiD v4. The miRNA sequencing data were validated by RT-PCR. Differential baseline expression of several miRNAs was found between responders and non-responders. Two miRNAs were up-regulated in the non-responder group (mir-935 and mir-4772) and three others were down-regulated (mir-223, mir-224 and mir-376b). Both mir-935 and mir-4772 showed relevant associations with the magnitude of weight loss, although the expression of other transcripts (mir-874, mir-199b, mir-766, mir-589 and mir-148b) also correlated with weight loss. This research addresses the use of high-throughput sequencing technologies in the search for miRNA expression biomarkers in obesity, by determining the miRNA transcriptome of PBMC. Basal expression of different miRNAs, particularly mir-935 and mir-4772, could be prognostic biomarkers and may forecast the response to a hypocaloric diet.

  14. A Solar Position Sensor Based on Image Vision.

    Science.gov (United States)

    Ruelas, Adolfo; Velázquez, Nicolás; Villa-Angulo, Carlos; Acuña, Alexis; Rosales, Pedro; Suastegui, José

    2017-07-29

    Solar collector technologies operate with better performance when the Sun beam direction is normal to the capturing surface, and for that to happen despite the relative movement of the Sun, solar tracking systems are used, therefore, there are rules and standards that need minimum accuracy for these tracking systems to be used in solar collectors' evaluation. Obtaining accuracy is not an easy job, hence in this document the design, construction and characterization of a sensor based on a visual system that finds the relative azimuth error and height of the solar surface of interest, is presented. With these characteristics, the sensor can be used as a reference in control systems and their evaluation. The proposed sensor is based on a microcontroller with a real-time clock, inertial measurement sensors, geolocation and a vision sensor, that obtains the angle of incidence from the sunrays' direction as well as the tilt and sensor position. The sensor's characterization proved how a measurement of a focus error or a Sun position can be made, with an accuracy of 0.0426° and an uncertainty of 0.986%, which can be modified to reach an accuracy under 0.01°. The validation of this sensor was determined showing the focus error on one of the best commercial solar tracking systems, a Kipp & Zonen SOLYS 2. To conclude, the solar tracking sensor based on a vision system meets the Sun detection requirements and components that meet the accuracy conditions to be used in solar tracking systems and their evaluation or, as a tracking and orientation tool, on photovoltaic installations and solar collectors.

  15. Novel Conserved Genotypes Correspond to Antibiotic Resistance Phenotypes of E. coli Clinical Isolates.

    Directory of Open Access Journals (Sweden)

    Michelle C Swick

    Full Text Available Current efforts to understand antibiotic resistance on the whole genome scale tend to focus on known genes even as high throughput sequencing strategies uncover novel mechanisms. To identify genomic variations associated with antibiotic resistance, we employed a modified genome-wide association study; we sequenced genomic DNA from pools of E. coli clinical isolates with similar antibiotic resistance phenotypes using SOLiD technology to uncover single nucleotide polymorphisms (SNPs unanimously conserved in each pool. The multidrug-resistant pools were genotypically similar to SMS-3-5, a previously sequenced multidrug-resistant isolate from a polluted environment. The similarity was evenly spread across the entire genome and not limited to plasmid or pathogenicity island loci. Among the pools of clinical isolates, genomic variation was concentrated adjacent to previously reported inversion and duplication differences between the SMS-3-5 isolate and the drug-susceptible laboratory strain, DH10B. SNPs that result in non-synonymous changes in gyrA (encoding the well-known S83L allele associated with fluoroquinolone resistance, mutM, ligB, and recG were unanimously conserved in every fluoroquinolone-resistant pool. Alleles of the latter three genes are tightly linked among most sequenced E. coli genomes, and had not been implicated in antibiotic resistance previously. The changes in these genes map to amino acid positions in alpha helices that are involved in DNA binding. Plasmid-encoded complementation of null strains with either allelic variant of mutM or ligB resulted in variable responses to ultraviolet light or hydrogen peroxide treatment as markers of induced DNA damage, indicating their importance in DNA metabolism and revealing a potential mechanism for fluoroquinolone resistance. Our approach uncovered evidence that additional DNA binding enzymes may contribute to fluoroquinolone resistance and further implicate environmental bacteria as a

  16. A Solar Position Sensor Based on Image Vision

    Directory of Open Access Journals (Sweden)

    Adolfo Ruelas

    2017-07-01

    Full Text Available Solar collector technologies operate with better performance when the Sun beam direction is normal to the capturing surface, and for that to happen despite the relative movement of the Sun, solar tracking systems are used, therefore, there are rules and standards that need minimum accuracy for these tracking systems to be used in solar collectors’ evaluation. Obtaining accuracy is not an easy job, hence in this document the design, construction and characterization of a sensor based on a visual system that finds the relative azimuth error and height of the solar surface of interest, is presented. With these characteristics, the sensor can be used as a reference in control systems and their evaluation. The proposed sensor is based on a microcontroller with a real-time clock, inertial measurement sensors, geolocation and a vision sensor, that obtains the angle of incidence from the sunrays’ direction as well as the tilt and sensor position. The sensor’s characterization proved how a measurement of a focus error or a Sun position can be made, with an accuracy of 0.0426° and an uncertainty of 0.986%, which can be modified to reach an accuracy under 0.01°. The validation of this sensor was determined showing the focus error on one of the best commercial solar tracking systems, a Kipp & Zonen SOLYS 2. To conclude, the solar tracking sensor based on a vision system meets the Sun detection requirements and components that meet the accuracy conditions to be used in solar tracking systems and their evaluation or, as a tracking and orientation tool, on photovoltaic installations and solar collectors.

  17. Novel SNP Discovery in African Buffalo, Syncerus caffer, using high-throughput Sequencing.

    Directory of Open Access Journals (Sweden)

    Nikki le Roex

    Full Text Available The African buffalo, Syncerus caffer, is one of the most abundant and ecologically important species of megafauna in the savannah ecosystem. It is an important prey species, as well as a host for a vast array of nematodes, pathogens and infectious diseases, such as bovine tuberculosis and corridor disease. Large-scale SNP discovery in this species would greatly facilitate further research into the area of host genetics and disease susceptibility, as well as provide a wealth of sequence information for other conservation and genomics studies. We sequenced pools of Cape buffalo DNA from a total of 9 animals, on an ABI SOLiD4 sequencer. The resulting short reads were mapped to the UMD3.1 Bos taurus genome assembly using both BWA and Bowtie software packages. A mean depth of 2.7× coverage over the mapped regions was obtained. Btau4 gene annotation was added to all SNPs identified within gene regions. Bowtie and BWA identified a maximum of 2,222,665 and 276,847 SNPs within the buffalo respectively, depending on analysis method. A panel of 173 SNPs was validated by fluorescent genotyping in 87 individuals. 27 SNPs failed to amplify, and of the remaining 146 SNPs, 43-54% of the Bowtie SNPs and 57-58% of the BWA SNPs were confirmed as polymorphic. dN/dS ratios found no evidence of positive selection, and although there were genes that appeared to be under negative selection, these were more likely to be slowly evolving house-keeping genes.

  18. El capital social como factor de éxito en microempresas rurales que elaboran productos procesados de nopal en Tlaxcala

    Directory of Open Access Journals (Sweden)

    Ingrid Anaid Toiber Rodríguez

    2017-01-01

    Full Text Available En México alrededor de 200,000 empresas se crean cada año, sin embargo, únicamente el 35% de ellas sobreviven después de dos años de operación. Entre las causas más importan-tes de este problema se encuentran la falta de acceso al financiamiento, fuerza de trabajo ca-rente de habilidades y deficiente información so-bre oportunidades de mercado. Dos estrategias comúnmente adoptadas por las empresas son la capacitación de sus integrantes y la participa-ción en asociaciones, como la Red Nacional de Desarrollo Rural Sustentable (Rendrus. El objetivo de este estudio fue identificar los factores de éxito de microempresas rurales que se dedican a la producción de productos procesados de nopal, en el estado de Tlaxcala, México, que han participado en las reuniones de la Rendrus. Metodología. Se utilizó la téc-nica de investigación de “Estudios de casos”, entrevistando a diversos integrantes de tres empresas. Los resultados indican que las em-presas han sobrevivido en el mercado gracias a su capital social, como el principal factor del éxito, manifestado a través de sus procesos or-ganizativos, compromiso, dedicación y soli-daridad, les ha permitido enfrentar las limi-tantes en relación a la disponibilidad de tecnología, problemas de mercadeo y canales de comercialización limitados, niveles bajos de ventas y esquemas limitados de innovación.

  19. Solar Force-free Magnetic Fields

    Directory of Open Access Journals (Sweden)

    Thomas Wiegelmann

    2012-09-01

    Full Text Available The structure and dynamics of the solar corona is dominated by the magnetic field. In most areas in the corona magnetic forces are so dominant that all non-magnetic forces like plasma pressure gradient and gravity can be neglected in the lowest order. This model assumption is called the force-free field assumption, as the Lorentz force vanishes. This can be obtained by either vanishing electric currents (leading to potential fields or the currents are co-aligned with the magnetic field lines. First we discuss a mathematically simpler approach that the magnetic field and currents are proportional with one global constant, the so-called linear force-free field approximation. In the generic case, however, the relation between magnetic fields and electric currents is nonlinear and analytic solutions have been only found for special cases, like 1D or 2D configurations. For constructing realistic nonlinear force-free coronal magnetic field models in 3D, sophisticated numerical computations are required and boundary conditions must be obtained from measurements of the magnetic field vector in the solar photosphere. This approach is currently of large interests, as accurate measurements of the photospheric field become available from ground-based (for example SOLIS and space-born (for example Hinode and SDO instruments. If we can obtain accurate force-free coronal magnetic field models we can calculate the free magnetic energy in the corona, a quantity which is important for the prediction of flares and coronal mass ejections. Knowledge of the 3D structure of magnetic field lines also help us to interpret other coronal observations, e.g., EUV images of the radiating coronal plasma.

  20. Trasformazione urbana verso la mobilità dolce: il caso di Istanbul

    Directory of Open Access Journals (Sweden)

    Emilia Giovanna Trifiletti

    2008-12-01

    Full Text Available Nell’articolo si descrivono le recenti trasformazioni urbane della città di Istanbul in Turchia in relazione all’implementazione di aree pedonali e all’utilizzo di mobilità dolce. Il sistema trasportistico è stato ampliato ed integrato di recente ed in tempi molto brevi: nei soli ultimi due anni è stata potenziata la linea tranviaria, sono state inaugurate una funicolare ed una teleferica ed è stata realizzata una stazione di interscambio gomma-ferro, ponendo grande attenzione all’integrazione del trasporto su ferro e/o gomma con la mobilità pedonale. Allo stesso modo sono state implementate le linee marittime che collegano le diverse sponde della città ed integrate alle linee su ferro e su gomma. Lo sviluppo e la riqualificazione della città sono dunque stati guidati dalla trasformazione del sistema trasportistico che ha rappresentato il vero motore della riqualificazione urbana. L’antico quartiere di Sultanahmet è stato interamente riqualificato e collegato, attraverso la linea tranviaria veloce che lo attraversa interamente, al resto della città fino ai quartieri più periferici. Allo stesso modo nel quartiere di Beyoglu che, dopo l’indipendenza era caduto in totale rovina, ha riacquistato l’antica eleganza che lo connotava. Il viale dell’Indipendenza (antica Rue De Pera che attraversa tutto il quartiere è stato reso pedonale e con un tram vintage che percorre tutto il viale sono stati collegati il nodo di interscambio Taksim, dotato di metropolitana e funicolare, con il nodo di interscambio Tünel, dotato di tram veloce e trasporto su gomma. Nell’articolo si è inteso evidenziare come la riqualificazione urbana della città sia stata guidata da interventi integrati trasporto/territorio e come i risultati ottenuti, nel caso-studio, siano stati anche il frutto di politiche attente alla sicurezza sociale.

  1. La gestione dei flussi turistici tramite sistemi di trasporto innovativi: l’esempio di Perugia

    Directory of Open Access Journals (Sweden)

    Leonardo Naldini

    2010-10-01

    Full Text Available La città di Perugia ha, fin dagli anni ’70, unito alla sua capacità di attrazione turistica, dovuta al patrimonio storico ambientale plurimillenario, una volontà di affrontare il tema della mobilità urbana in maniera profondamente innovativa ed ambientalmente sostenibile. Il concetto della creazione di parcheggi di attestazione, serviti da percorsi meccanizzati di risalita verso l’acropoli, è stato recentemente ampliato dalla creazione del Minimetro, mezzo di trasporto innovativo, dal ridottissimo impatto ambientale, che unisce in soli 12 minuti, con un servizio semicontinuo, l’area di valle di Pian di Massiano, dotata di un capace parcheggio da circa 2800 posti auto, al centro cittadino, servendo diversi quartieri urbani. Tale sistema di trasporto, corridoio forte del trasporto pubblico urbano, ha fornito lo spunto per attuare una nuova modalità di gestione dei flussi turistici, che individua nel Minimetro la modalità principale di accesso al centro storico sia per i gruppi a numero ridotto, sia per i gruppi organizzati in arrivo con i bus turistici. L’organizzazione della mobilità turistica che ne è derivata costituisce un ulteriore passo in avanti lungo quell’itinerario di gestione della città che cerca di coniugare l’attrattiva turistica, con le sue ricadute in termini di crescita economica, e la salvaguardia del patrimonio storico artistico e della qualità della vita dei cittadini. Gli scenari futuri vedono un’iniezione di tecnologia in questo contesto, con l’introduzione nella gestione dei flussi turistici dei concetti di accreditamento, dell’infomobilità come supporto alle politiche urbane, del controllo unito alla fornitura di servizi georeferenziati.

  2. ngs_backbone: a pipeline for read cleaning, mapping and SNP calling using next generation sequence.

    Science.gov (United States)

    Blanca, Jose M; Pascual, Laura; Ziarsolo, Peio; Nuez, Fernando; Cañizares, Joaquin

    2011-06-02

    The possibilities offered by next generation sequencing (NGS) platforms are revolutionizing biotechnological laboratories. Moreover, the combination of NGS sequencing and affordable high-throughput genotyping technologies is facilitating the rapid discovery and use of SNPs in non-model species. However, this abundance of sequences and polymorphisms creates new software needs. To fulfill these needs, we have developed a powerful, yet easy-to-use application. The ngs_backbone software is a parallel pipeline capable of analyzing Sanger, 454, Illumina and SOLiD (Sequencing by Oligonucleotide Ligation and Detection) sequence reads. Its main supported analyses are: read cleaning, transcriptome assembly and annotation, read mapping and single nucleotide polymorphism (SNP) calling and selection. In order to build a truly useful tool, the software development was paired with a laboratory experiment. All public tomato Sanger EST reads plus 14.2 million Illumina reads were employed to test the tool and predict polymorphism in tomato. The cleaned reads were mapped to the SGN tomato transcriptome obtaining a coverage of 4.2 for Sanger and 8.5 for Illumina. 23,360 single nucleotide variations (SNVs) were predicted. A total of 76 SNVs were experimentally validated, and 85% were found to be real. ngs_backbone is a new software package capable of analyzing sequences produced by NGS technologies and predicting SNVs with great accuracy. In our tomato example, we created a highly polymorphic collection of SNVs that will be a useful resource for tomato researchers and breeders. The software developed along with its documentation is freely available under the AGPL license and can be downloaded from http://bioinf.comav.upv.es/ngs_backbone/ or http://github.com/JoseBlanca/franklin.

  3. ngs_backbone: a pipeline for read cleaning, mapping and SNP calling using Next Generation Sequence

    Directory of Open Access Journals (Sweden)

    Cañizares Joaquin

    2011-06-01

    Full Text Available Abstract Background The possibilities offered by next generation sequencing (NGS platforms are revolutionizing biotechnological laboratories. Moreover, the combination of NGS sequencing and affordable high-throughput genotyping technologies is facilitating the rapid discovery and use of SNPs in non-model species. However, this abundance of sequences and polymorphisms creates new software needs. To fulfill these needs, we have developed a powerful, yet easy-to-use application. Results The ngs_backbone software is a parallel pipeline capable of analyzing Sanger, 454, Illumina and SOLiD (Sequencing by Oligonucleotide Ligation and Detection sequence reads. Its main supported analyses are: read cleaning, transcriptome assembly and annotation, read mapping and single nucleotide polymorphism (SNP calling and selection. In order to build a truly useful tool, the software development was paired with a laboratory experiment. All public tomato Sanger EST reads plus 14.2 million Illumina reads were employed to test the tool and predict polymorphism in tomato. The cleaned reads were mapped to the SGN tomato transcriptome obtaining a coverage of 4.2 for Sanger and 8.5 for Illumina. 23,360 single nucleotide variations (SNVs were predicted. A total of 76 SNVs were experimentally validated, and 85% were found to be real. Conclusions ngs_backbone is a new software package capable of analyzing sequences produced by NGS technologies and predicting SNVs with great accuracy. In our tomato example, we created a highly polymorphic collection of SNVs that will be a useful resource for tomato researchers and breeders. The software developed along with its documentation is freely available under the AGPL license and can be downloaded from http://bioinf.comav.upv.es/ngs_backbone/ or http://github.com/JoseBlanca/franklin.

  4. First Use of Synoptic Vector Magnetograms for Global Nonlinear, Force-Free Coronal Magnetic Field Models

    Science.gov (United States)

    Tadesse, T.; Wiegelmann, T.; Gosain, S.; MacNeice, P.; Pevtsov, A. A.

    2014-01-01

    Context. The magnetic field permeating the solar atmosphere is generally thought to provide the energy for much of the activity seen in the solar corona, such as flares, coronal mass ejections (CMEs), etc. To overcome the unavailability of coronal magnetic field measurements, photospheric magnetic field vector data can be used to reconstruct the coronal field. Currently, there are several modelling techniques being used to calculate three-dimensional field lines into the solar atmosphere. Aims. For the first time, synoptic maps of a photospheric-vector magnetic field synthesized from the vector spectromagnetograph (VSM) on Synoptic Optical Long-term Investigations of the Sun (SOLIS) are used to model the coronal magnetic field and estimate free magnetic energy in the global scale. The free energy (i.e., the energy in excess of the potential field energy) is one of the main indicators used in space weather forecasts to predict the eruptivity of active regions. Methods. We solve the nonlinear force-free field equations using an optimization principle in spherical geometry. The resulting threedimensional magnetic fields are used to estimate the magnetic free energy content E(sub free) = E(sub nlfff) - E(sub pot), which is the difference of the magnetic energies between the nonpotential field and the potential field in the global solar corona. For comparison, we overlay the extrapolated magnetic field lines with the extreme ultraviolet (EUV) observations by the atmospheric imaging assembly (AIA) on board the Solar Dynamics Observatory (SDO). Results. For a single Carrington rotation 2121, we find that the global nonlinear force-free field (NLFFF) magnetic energy density is 10.3% higher than the potential one. Most of this free energy is located in active regions.

  5. PIXEL ANALYSIS OF PHOTOSPHERIC SPECTRAL DATA. I. PLASMA DYNAMICS

    Energy Technology Data Exchange (ETDEWEB)

    Rasca, Anthony P.; Chen, James [Plasma Physics Division, U.S. Naval Research Laboratory, Washington, DC 20375 (United States); Pevtsov, Alexei A., E-mail: anthony.rasca.ctr@nrl.navy.mil [National Solar Observatory, Sunspot, NM 88349 (United States)

    2016-11-20

    Recent observations of the photosphere using high spatial and temporal resolution show small dynamic features at or below the current resolving limits. A new pixel dynamics method has been developed to analyze spectral profiles and quantify changes in line displacement, width, asymmetry, and peakedness of photospheric absorption lines. The algorithm evaluates variations of line profile properties in each pixel and determines the statistics of such fluctuations averaged over all pixels in a given region. The method has been used to derive statistical characteristics of pixel fluctuations in observed quiet-Sun regions, an active region with no eruption, and an active region with an ongoing eruption. Using Stokes I images from the Vector Spectromagnetograph (VSM) of the Synoptic Optical Long-term Investigations of the Sun (SOLIS) telescope on 2012 March 13, variations in line width and peakedness of Fe i 6301.5 Å are shown to have a distinct spatial and temporal relationship with an M7.9 X-ray flare in NOAA 11429. This relationship is observed as stationary and contiguous patches of pixels adjacent to a sunspot exhibiting intense flattening in the line profile and line-center displacement as the X-ray flare approaches peak intensity, which is not present in area scans of the non-eruptive active region. The analysis of pixel dynamics allows one to extract quantitative information on differences in plasma dynamics on sub-pixel scales in these photospheric regions. The analysis can be extended to include the Stokes parameters and study signatures of vector components of magnetic fields and coupled plasma properties.

  6. Molecular detection of Acinetobacter species in lice and keds of domestic animals in Oromia Regional State, Ethiopia.

    Science.gov (United States)

    Kumsa, Bersissa; Socolovschi, Cristina; Parola, Philippe; Rolain, Jean-Marc; Raoult, Didier

    2012-01-01

    This study was conducted to determine the presence of Acinetobacter and Rickettsia species DNA in lice and Melophagus ovinus (sheep ked) of animals from Oromia Regional State in Ethiopia. From September through November 2011, a total of 207 cattle, 85 sheep, 47 dogs and 16 cats were examined for ectoparasites. Results of morphological identification revealed several species of ectoparasites: Linognathus vituli (L. vituli), Bovicola bovis (B. bovis) and Solenopotes capillatus (S. capillatus) on cattle; B. ovis and Melophagus ovinus (M. ovinus) on sheep; and Heterodoxus spiniger (H. spiniger) on dogs. There was a significantly (p≤0.0001) higher prevalence of L. vituli observed in cattle than both S. capillatus and B. bovis. Molecular identification of lice using an 18S rRNA gene analysis confirms the identified lice species by morphological methods. We detected different Acinetobacter species among lice (11.1%) and keds (86.4%) including A. soli in L. vituli of cattle, A. lowffii in M. ovinus of sheep, A. pittii in H. spiniger of dogs, 1 new Acinetobacter spp. in M. ovinus and 2 new Acinetobacter spp. in H. spiniger of dogs using partial rpoB gene sequence analysis. There was a significantly higher prevalence of Acinetobacter spp. in keds than in lice (p≤0.00001). Higher percentage of Acinetobacter spp. DNA was detected in H. spiniger than in both B. ovis and L. vituli (p≤0.00001). Carbapenemase resistance encoding genes for blaOXA-23, blaOXA-24, blaOXA-58, blaNDM-1 and blaOXA-51 were not found in any lice and keds. These findings suggest that synanthropic animals and their ectoparasites might increase the risk of human exposure to zoonotic pathogens and could be a source for Acinetobacter spp. infections in humans. However, additional epidemiological data are required to determine whether ectoparasites of animals can act as environmental reservoirs and play a role in spreading these bacteria to both animal and human hosts.

  7. Comparative Analyses of H3K4 and H3K27 Trimethylations Between the Mouse Cerebrum and Testis

    KAUST Repository

    Cui, Peng

    2012-06-08

    The global features of H3K4 and H3K27 trimethylations (H3K4me3 and H3K27me3) have been well studied in recent years, but most of these studies were performed in mammalian cell lines. In this work, we generated the genome-wide maps of H3K4me3 and H3K27me3 of mouse cerebrum and testis using ChIP-seq and their high-coverage transcriptomes using ribominus RNA-seq with SOLiD technology. We examined the global patterns of H3K4me3 and H3K27me3 in both tissues and found that modifications are closely-associated with tissue-specific expression, function and development. Moreover, we revealed that H3K4me3 and H3K27me3 rarely occur in silent genes, which contradicts the findings in previous studies. Finally, we observed that bivalent domains, with both H3K4me3 and H3K27me3, existed ubiquitously in both tissues and demonstrated an invariable preference for the regulation of developmentally-related genes. However, the bivalent domains tend towards a “winner-takes-all” approach to regulate the expression of associated genes. We also verified the above results in mouse ES cells. As expected, the results in ES cells are consistent with those in cerebrum and testis. In conclusion, we present two very important findings. One is that H3K4me3 and H3K27me3 rarely occur in silent genes. The other is that bivalent domains may adopt a “winner-takes-all” principle to regulate gene expression.

  8. Novel Conserved Genotypes Correspond to Antibiotic Resistance Phenotypes of E. coli Clinical Isolates.

    Science.gov (United States)

    Swick, Michelle C; Evangelista, Michael A; Bodine, Truston J; Easton-Marks, Jeremy R; Barth, Patrick; Shah, Minita J; Bormann Chung, Christina A; Stanley, Sarah; McLaughlin, Stephen F; Lee, Clarence C; Sheth, Vrunda; Doan, Quynh; Hamill, Richard J; Steffen, David; Becnel, Lauren B; Sucgang, Richard; Zechiedrich, Lynn

    2013-01-01

    Current efforts to understand antibiotic resistance on the whole genome scale tend to focus on known genes even as high throughput sequencing strategies uncover novel mechanisms. To identify genomic variations associated with antibiotic resistance, we employed a modified genome-wide association study; we sequenced genomic DNA from pools of E. coli clinical isolates with similar antibiotic resistance phenotypes using SOLiD technology to uncover single nucleotide polymorphisms (SNPs) unanimously conserved in each pool. The multidrug-resistant pools were genotypically similar to SMS-3-5, a previously sequenced multidrug-resistant isolate from a polluted environment. The similarity was evenly spread across the entire genome and not limited to plasmid or pathogenicity island loci. Among the pools of clinical isolates, genomic variation was concentrated adjacent to previously reported inversion and duplication differences between the SMS-3-5 isolate and the drug-susceptible laboratory strain, DH10B. SNPs that result in non-synonymous changes in gyrA (encoding the well-known S83L allele associated with fluoroquinolone resistance), mutM, ligB, and recG were unanimously conserved in every fluoroquinolone-resistant pool. Alleles of the latter three genes are tightly linked among most sequenced E. coli genomes, and had not been implicated in antibiotic resistance previously. The changes in these genes map to amino acid positions in alpha helices that are involved in DNA binding. Plasmid-encoded complementation of null strains with either allelic variant of mutM or ligB resulted in variable responses to ultraviolet light or hydrogen peroxide treatment as markers of induced DNA damage, indicating their importance in DNA metabolism and revealing a potential mechanism for fluoroquinolone resistance. Our approach uncovered evidence that additional DNA binding enzymes may contribute to fluoroquinolone resistance and further implicate environmental bacteria as a reservoir for

  9. The detection and sequencing of a broad-host-range conjugative IncP-1β plasmid in an epidemic strain of Mycobacterium abscessus subsp. bolletii.

    Directory of Open Access Journals (Sweden)

    Sylvia Cardoso Leão

    Full Text Available BACKGROUND: An extended outbreak of mycobacterial surgical infections occurred in Brazil during 2004-2008. Most infections were caused by a single strain of Mycobacterium abscessus subsp. bolletii, which was characterized by a specific rpoB sequevar and two highly similar pulsed-field gel electrophoresis (PFGE patterns differentiated by the presence of a ∼50 kb band. The nature of this band was investigated. METHODOLOGY/PRINCIPAL FINDINGS: Genomic sequencing of the prototype outbreak isolate INCQS 00594 using the SOLiD platform demonstrated the presence of a 56,267-bp [corrected] circular plasmid, designated pMAB01. Identity matrices, genetic distances and phylogeny analyses indicated that pMAB01 belongs to the broad-host-range plasmid subgroup IncP-1β and is highly related to BRA100, pJP4, pAKD33 and pB10. The presence of pMAB01-derived sequences in 41 M. abscessus subsp. bolletii isolates was evaluated using PCR, PFGE and Southern blot hybridization. Sixteen of the 41 isolates showed the presence of the plasmid. The plasmid was visualized as a ∼50-kb band using PFGE and Southern blot hybridization in 12 isolates. The remaining 25 isolates did not exhibit any evidence of this plasmid. The plasmid was successfully transferred to Escherichia coli by conjugation and transformation. Lateral transfer of pMAB01 to the high efficient plasmid transformation strain Mycobacterium smegmatis mc(2155 could not be demonstrated. CONCLUSIONS/SIGNIFICANCE: The occurrence of a broad-host-range IncP-1β plasmid in mycobacteria is reported for the first time. Thus, genetic exchange could result in the emergence of specific strains that might be better adapted to cause human disease.

  10. Burkholderia dabaoshanensis sp. nov., a heavy-metal-tolerant bacteria isolated from Dabaoshan mining area soil in China.

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    Honghui Zhu

    Full Text Available Heavy-metal-tolerant bacteria, GIMN1.004(T, was isolated from mine soils of Dabaoshan in South China, which were acidic (pH 2-4 and polluted with heavy metals. The isolation was Gram-negative, aerobic, non-spore-forming, and rod-shaped bacteria having a cellular width of 0.5-0.6 µm and a length of 1.3-1.8 µm. They showed a normal growth pattern at pH 4.0-9.0 in a temperature ranging from 5 °C to 40 °C.The organism contained ubiquinone Q-8 as the predominant isoprenoid quinine, and C(16:0, summed feature 8 (C(18:1ω7c and C(18:1ω6c, C(18:0, summed feature 3 (C(16:1ω7c or iso-C(15:0 2-OH, C(17:0 cyclo, C(18:1ω9c, C(19:0 cyclo ω8c, C(14:0 as major fatty acid. These profiles were similar to those reported for Burkholderia species. The DNA G+C % of this strain was 61.6%. Based on the similarity to 16S rRNA gene sequence, GIMN1.004(T was considered to be in the genus Burkholderia. The similarities of 16S rRNA gene sequence between strain GIMN1.004(T and members of the genus Burkholderia were 96-99.4%, indicating that this novel strain was phylogenetically related to members of that genus. The novel strain showed the highest sequence similarities to Burkholderia soli DSM 18235(T (99.4%; Levels of DNA-DNA hybridization with DSM 18235(T was 25%. Physiological and biochemical tests including cell wall composition analysis, differentiated phenotype of this strain from that closely related Burkholderia species. The isolation had great tolerance to cadmium with MIC of 22 mmol/L, and adsorbability of 144.94 mg/g cadmium,and it was found to exhibit antibiotic resistance characteristics. The adsorptive mechanism of GIMN1.004(T for cadmium depended on the action of the amide,carboxy and phosphate of cell surface and producing low-molecular-weight (LMW organic acids to complex or chelated Cd(2+.Therefore, the strain GIMN1.004(T represented a new cadmium resistance species, which was tentatively named as Burkholderia dabaoshanensis sp. nov. The strain type

  11. Characterization of a biogas-producing microbial community by short-read next generation DNA sequencing

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    Wirth Roland

    2012-07-01

    Full Text Available Abstract Background Renewable energy production is currently a major issue worldwide. Biogas is a promising renewable energy carrier as the technology of its production combines the elimination of organic waste with the formation of a versatile energy carrier, methane. In consequence of the complexity of the microbial communities and metabolic pathways involved the biotechnology of the microbiological process leading to biogas production is poorly understood. Metagenomic approaches are suitable means of addressing related questions. In the present work a novel high-throughput technique was tested for its benefits in resolving the functional and taxonomical complexity of such microbial consortia. Results It was demonstrated that the extremely parallel SOLiD™ short-read DNA sequencing platform is capable of providing sufficient useful information to decipher the systematic and functional contexts within a biogas-producing community. Although this technology has not been employed to address such problems previously, the data obtained compare well with those from similar high-throughput approaches such as 454-pyrosequencing GS FLX or Titanium. The predominant microbes contributing to the decomposition of organic matter include members of the Eubacteria, class Clostridia, order Clostridiales, family Clostridiaceae. Bacteria belonging in other systematic groups contribute to the diversity of the microbial consortium. Archaea comprise a remarkably small minority in this community, given their crucial role in biogas production. Among the Archaea, the predominant order is the Methanomicrobiales and the most abundant species is Methanoculleus marisnigri. The Methanomicrobiales are hydrogenotrophic methanogens. Besides corroborating earlier findings on the significance of the contribution of the Clostridia to organic substrate decomposition, the results demonstrate the importance of the metabolism of hydrogen within the biogas producing microbial

  12. Music and the Nature: Input of the Czech Composers

    Science.gov (United States)

    Nemec, Vaclav; Nemcova, Lidmila

    2014-05-01

    Slovak mountains. Josef Suk (1874 - 1935): Pohádka léta (A Summer's Tale) - a work for orchestra remembering a relax and consolation in beauties of the Nature. Bohuslav Martinů (1890 - 1959): Otvírání studánek (The Opening of the Springs) - cantata for soli, female chorus and instrumental accompaniment remembering old local customs of purifying water in the wells when spring comes.

  13. Biological soil crusts in Chile along the precipitation gradient

    Science.gov (United States)

    Samolov, Elena; Glaser, Karin; Baumann, Karen; Leinweber, Peter; Jung, Patrick; Büdel, Burkhard; Mikhailyuk, Tatiana; Karsten, Ulf

    2017-04-01

    resonance) spectroscopy and P K-edge XANES (x-ray absorbance near edge structures). Total P as well as P fractions were quantified in all BSCs, adjacent soil underneath and comparable nearby soil of BSC-free areas, revealing a slight accumulation of total phosphorous and a distinct pattern of P fractions in the crust. Our study describes for the first time the diversity of photosynthetic organisms in BSCs along a precipitation gradient in South America and their functional role in biogeochemical cycle of phosphorus as an important macronutrient. Reference: Büdel et al. "Cyanobacteria and Algae of Biological soil crusts". In B. Weber et al. (eds.), Biological Soli Crusts: An Organizing Principle in Drylands, Ecological Studies 226, Springer International Publishing Switzerland: 2016. (pp. 55-80).

  14. Origins of a 350-Kilobase Genomic Duplication in Mycobacterium tuberculosis and Its Impact on Virulence

    Science.gov (United States)

    Domenech, Pilar; Rog, Anya; Moolji, Jalal-ud-din; Radomski, Nicolas; Fallow, Ashley; Leon-Solis, Lizbel; Bowes, Julia; Behr, Marcel A.

    2014-01-01

    In the present study, we have investigated the evolution and impact on virulence of a 350-kb genomic duplication present in the most recently evolved members of the Mycobacterium tuberculosis East Asian lineage. In a mouse model of infection, comparing HN878 subclones HN878-27 (no duplication) and HN878-45 (with the 350-kb duplication) revealed that the latter is impaired for in vivo growth during the initial 3 weeks of infection. Furthermore, the median survival time of mice infected with isolate HN878-45 is significantly longer (77 days) than that of mice infected with HN878-27. Whole-genome sequencing of both isolates failed to reveal any mutational events other than the duplication that could account for such a substantial difference in virulence. Although we and others had previously speculated that the 350-kb duplication arose in response to some form of host-applied selective pressure (P. Domenech, G. S. Kolly, L. Leon-Solis, A. Fallow, M. B. Reed, J. Bacteriol. 192:4562–4570, 2010, and B. Weiner, J. Gomez, T. C. Victor, R. M. Warren, A. Sloutsky, B. B. Plikaytis, J. E. Posey, P. D. van Helden, N. C. Gey van Pittius, M. Koehrsen, P. Sisk, C. Stolte, J. White, S. Gagneux, B. Birren, D. Hung, M. Murray, J. Galagan, PLoS One 7:e26038, 2012), here we show that this large chromosomal amplification event is very rapidly selected within standard in vitro broth cultures in a range of isolates. Indeed, subclones harboring the duplication were detectable after just five rounds of in vitro passage. In contrast, the duplication appears to be highly unstable in vivo and is negatively selected during the later stages of infection in mice. We believe that the rapid in vitro evolution of M. tuberculosis is an underappreciated aspect of its biology that is often ignored, despite the fact that it has the potential to confound the data and conclusions arising from comparative studies of isolates at both the genotypic and phenotypic levels. PMID:24778110

  15. Il contributo di una Unitá Operativa Complessa: di Infettivologia Pediatrica durante l'epidemia di morbillo in Campania.

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    G. De Lorenzo

    2003-05-01

    Full Text Available

    Il morbillo è un importante problema di Sanità Pubblica che comporta un elevato rischio di complicanze con conseguenti eccessi di ospedalizzazione, mortalità e costi elevati.

    Obiettivi: Valutare incidenza, decorso clinico, complicanze e scelte terapeutiche in bambini ospedalizzati per morbillo, nonché l’impatto dell’epidemia su strutture ed operatori di una U.O.C. di Infettivologia Pediatrica con 16 p.l.

    Metodologia: dalle cartelle cliniche dei bambini ricoverati per morbillo presso l’U.O.C. di Pediatria Infettivologica dell’Ospedale Pausillipon di Napoli, nel corso dell’epidemia verificatasi in Campania tra gennaio e maggio 2002, sono stati raccolti, mediante una apposita griglia di rilevazione, i dati socio anagrafici, quelli relativi a decorso della malattia, eventuali complicanze, scelte terapeutiche adottate, stato immunitario del bambino e della madre, possibile fonte di contagio, motivazione al ricovero. Su 78 bambini ricoverati (38F e 40M, età media di 4,2 anni (range 0,1 14 anni, di cui 20 con età inferiore a 15 mesi, 42 hanno presentato complicanze: 27 broncopolmoniti, di cui 4 di presumibile origine virale e 23 da presumibile sovrainfezione batterica, 7 laringotracheobronchiti (croup, 4 diarrea con disidratazione, 1 otite media, 4 piastrinopenia transitoria, 2 stomatiti, 1 cistite emorragica, 1 meningoencefalite. Oltre alla terapia antibiotica e cortisonica (quando indicate, 27 bambini hanno ricevuto una singola somministrazione di Vitamina A, con decorso favorevole della malattia e nessun effetto collaterale. In soli due bambini era stata praticata la vaccinazione antimorbillo.

    Conclusioni: i dati confermano l’importanza della vaccinazione antimorbillo e l’opportunità di anticiparla a 6 mesi in corso di epidemia (nella quasi totalità dei casi di età ‹15 mesi la fonte di contagio è stata la malattia in

  16. Genome-Wide Gene Expression Profiling of Nucleus Accumbens Neurons Projecting to Ventral Pallidum Using both Microarray and Transcriptome Sequencing.

    Science.gov (United States)

    Chen, Hao; Liu, Zhimin; Gong, Suzhen; Wu, Xingjun; Taylor, William L; Williams, Robert W; Matta, Shannon G; Sharp, Burt M

    2011-01-01

    The cellular heterogeneity of brain poses a particularly thorny issue in genome-wide gene expression studies. Because laser capture microdissection (LCM) enables the precise extraction of a small area of tissue, we combined LCM with neuronal track tracing to collect nucleus accumbens shell neurons that project to ventral pallidum, which are of particular interest in the study of reward and addiction. Four independent biological samples of accumbens projection neurons were obtained. Approximately 500 pg of total RNA from each sample was then amplified linearly and subjected to Affymetrix microarray and Applied Biosystems sequencing by oligonucleotide ligation and detection (SOLiD) transcriptome sequencing (RNA-seq). A total of 375 million 50-bp reads were obtained from RNA-seq. Approximately 57% of these reads were mapped to the rat reference genome (Baylor 3.4/rn4). Approximately 11,000 unique RefSeq genes and 100,000 unique exons were identified from each sample. Of the unmapped reads, the quality scores were 4.74 ± 0.42 lower than the mapped reads. When RNA-seq and microarray data from the same samples were compared, Pearson correlations were between 0.764 and 0.798. The variances in data obtained for the four samples by microarray and RNA-seq were similar for medium to high abundance genes, but less among low abundance genes detected by microarray. Analysis of 34 genes by real-time polymerase chain reaction showed higher correlation with RNA-seq (0.66) than with microarray (0.46). Further analysis showed 20-30 million 50-bp reads are sufficient to provide estimates of gene expression levels comparable to those produced by microarray. In summary, this study showed that picogram quantities of total RNA obtained by LCM of ∼700 individual neurons is sufficient to take advantage of the benefits provided by the transcriptome sequencing technology, such as low background noise, high dynamic range, and high precision.

  17. Comprehensive Assessments of RNA-seq by the SEQC Consortium: FDA-Led Efforts Advance Precision Medicine.

    Science.gov (United States)

    Xu, Joshua; Gong, Binsheng; Wu, Leihong; Thakkar, Shraddha; Hong, Huixiao; Tong, Weida

    2016-03-15

    Studies on gene expression in response to therapy have led to the discovery of pharmacogenomics biomarkers and advances in precision medicine. Whole transcriptome sequencing (RNA-seq) is an emerging tool for profiling gene expression and has received wide adoption in the biomedical research community. However, its value in regulatory decision making requires rigorous assessment and consensus between various stakeholders, including the research community, regulatory agencies, and industry. The FDA-led SEquencing Quality Control (SEQC) consortium has made considerable progress in this direction, and is the subject of this review. Specifically, three RNA-seq platforms (Illumina HiSeq, Life Technologies SOLiD, and Roche 454) were extensively evaluated at multiple sites to assess cross-site and cross-platform reproducibility. The results demonstrated that relative gene expression measurements were consistently comparable across labs and platforms, but not so for the measurement of absolute expression levels. As part of the quality evaluation several studies were included to evaluate the utility of RNA-seq in clinical settings and safety assessment. The neuroblastoma study profiled tumor samples from 498 pediatric neuroblastoma patients by both microarray and RNA-seq. RNA-seq offers more utilities than microarray in determining the transcriptomic characteristics of cancer. However, RNA-seq and microarray-based models were comparable in clinical endpoint prediction, even when including additional features unique to RNA-seq beyond gene expression. The toxicogenomics study compared microarray and RNA-seq profiles of the liver samples from rats exposed to 27 different chemicals representing multiple toxicity modes of action. Cross-platform concordance was dependent on chemical treatment and transcript abundance. Though both RNA-seq and microarray are suitable for developing gene expression based predictive models with comparable prediction performance, RNA-seq offers

  18. Comprehensive Assessments of RNA-seq by the SEQC Consortium: FDA-Led Efforts Advance Precision Medicine

    Directory of Open Access Journals (Sweden)

    Joshua Xu

    2016-03-01

    Full Text Available Studies on gene expression in response to therapy have led to the discovery of pharmacogenomics biomarkers and advances in precision medicine. Whole transcriptome sequencing (RNA-seq is an emerging tool for profiling gene expression and has received wide adoption in the biomedical research community. However, its value in regulatory decision making requires rigorous assessment and consensus between various stakeholders, including the research community, regulatory agencies, and industry. The FDA-led SEquencing Quality Control (SEQC consortium has made considerable progress in this direction, and is the subject of this review. Specifically, three RNA-seq platforms (Illumina HiSeq, Life Technologies SOLiD, and Roche 454 were extensively evaluated at multiple sites to assess cross-site and cross-platform reproducibility. The results demonstrated that relative gene expression measurements were consistently comparable across labs and platforms, but not so for the measurement of absolute expression levels. As part of the quality evaluation several studies were included to evaluate the utility of RNA-seq in clinical settings and safety assessment. The neuroblastoma study profiled tumor samples from 498 pediatric neuroblastoma patients by both microarray and RNA-seq. RNA-seq offers more utilities than microarray in determining the transcriptomic characteristics of cancer. However, RNA-seq and microarray-based models were comparable in clinical endpoint prediction, even when including additional features unique to RNA-seq beyond gene expression. The toxicogenomics study compared microarray and RNA-seq profiles of the liver samples from rats exposed to 27 different chemicals representing multiple toxicity modes of action. Cross-platform concordance was dependent on chemical treatment and transcript abundance. Though both RNA-seq and microarray are suitable for developing gene expression based predictive models with comparable prediction performance, RNA

  19. Proposal of nine novel species of the genus Lysinimicrobium and emended description of the genus Lysinimicrobium.

    Science.gov (United States)

    Hamada, Moriyuki; Shibata, Chiyo; Saitou, Satomi; Tamura, Tomohiko; Komaki, Hisayuki; Ichikawa, Natsuko; Oguchi, Akio; Hosoyama, Akira; Fujita, Nobuyuki; Yamamura, Hideki; Hayakawa, Masayuki; Suzuki, Ken-Ichiro

    2015-12-01

    Thirteen novel Gram-stain-positive bacteria were isolated from various samples collected from mangrove forests in Japan, and their taxonomic positions were investigated by a polyphasic approach. Phylogenetic analyses based on 16S rRNA gene sequence comparisons showed that the 13 isolates formed a single clade with Lysinimicrobium mangrovi HI08-69T, with a similarity range of 97.6-99.5 %. The peptidoglycan of the isolates was of the A4α type with an interpeptide bridge comprising Ser-Glu and an l-Ser residue at position 1 of the peptide subunit. The predominant menaquinone was demethylmenaquinone DMK-9(H4) and the major fatty acid was anteiso-C15 : 0. These chemotaxonomic characteristics corresponded to those of the genus Lysinimicrobium. On the basis of the phenotypic and phylogenetic data, along with average nucleotide identity values among the isolates, we concluded that the 13 isolates should be assigned to the following nine novel species of the genus Lysinimicrobium: Lysinimicrobium aestuarii sp. nov. (type strain HI12-104T = NBRC 109392T = DSM 28144T), Lysinimicrobium flavum sp. nov. (type strain HI12-45T = NBRC 109391T = DSM 28150T), Lysinimicrobium gelatinilyticum sp. nov. (type strain HI12-44T = NBRC 109390T = DSM 28149T), Lysinimicrobium iriomotense sp. nov. (type strain HI12-143T = NBRC 109399T = DSM 28146T), Lysinimicrobium luteum sp. nov. (type strain HI12-123T = NBRC 109395T = DSM 28147T), Lysinimicrobium pelophilum sp. nov. (type strain HI12-111T = NBRC 109393T = DSM 28148T), Lysinimicrobium rhizosphaerae sp. nov. (type strain HI12-135T = NBRC 109397T = DSM 28152T), Lysinimicrobium soli sp. nov. (type strain HI12-122T = NBRC 109394T = DSM 28151T) and Lysinimicrobium subtropicum sp. nov. (type strain HI12-128T = NBRC 109396T = DSM 28145T). In addition, an emended description of the genus Lysinimicrobium is proposed.

  20. Ethical issues in human reproduction: Protestant perspectives in the light of European Protestant and Reformed Churches.

    Science.gov (United States)

    Birkhäuser, Martin

    2013-11-01

    Protestantism is not a centralized religion. It is composed by many independent Churches having different moral and ethical standards. This review concentrates on the ethical principles prevalent in most modern European Reformed Churches. It does not intend to discuss the ethical principles of many other Protestant Churches present mainly in the USA. The common foundations of Protestant theology are the "five sola ("Sola scriptura", Sola fide", "Sola gratia", Solus Christus or Solo Christo", "Soli deo gloria"). In opposition to the Catholic Church, no intermediary is needed between the Bible and the believer. As a consequence, Protestant Churches have no Magisterium, such as the Catholic Church. Therefore Protestant Churches cannot declare a certain position to be the "official position". Each Christian is personally responsible for all his acts, including his ethical behaviour. There is no complete unanimity among all Protestants on ethics or on any other issue. Human dignity, personal rights and self-determination have to be respected in each ethical consideration. The supersession of the Old Mosaic Covenant (including traditional Jewish law or Halakhah, maintained in Catholicism) by the New Covenant and by Christian Theology has an important impact on Protestant ethics in reproductive medicine. In the New Covenant, the Protestants Churches did not maintain the mandatory obligation from the old Mosaic Covenant to be fruitful and to multiply: there is no divine obligation by God to procreate. As a consequence, contraception is not a sin and not unethical. The status of the embryo is the key for the ethical consideration of all methods used in reproductive medicine. Most representatives of modern Protestant theology and bioethics defend the opinion that the embryo is not an independent human being as is the newborn child. For most Protestant bio-ethicists, as long as an embryo has no nervous system, no organs and no pain receptors, it cannot be seen as a human

  1. Effect of dry land transformation and quality of water use for crop irrigation on the soil bacterial community in the Mezquital Valley, Mexico

    Science.gov (United States)

    Lüneberg, Kathia; Schneider, Dominik; Daniel, Rolf; Siebe, Christina

    2017-04-01

    freshwater and untreated wastewater, as these systems showed differences in soil properties between seasons such as P content and electric conductivity. Potential functional profiles revealed that differences in land use systems also influence distinct functional pathways. Nitrogen fixation, nitrification, denitrification pathways and methane metabolism are potentially enhanced in wastewater irrigation systems, while dissimilatory nitrate reduction, anammox, lignin and chitin degradation are diminished. The junction of 16S rRNA data and associated functional profiles provided extensive understanding into the bacterial community responses to changing environmental conditions associated with differences in land use, management and seasonality in drylands. Irrigation with wastewater can be potentially harmful as higher abundance of the pathogens A. baumanni, A. soli, A. junii, A. haemolyticus, A. schindleri, B. thuringiensis/anthracis,cereus and N. flavorosea was recorded in these systems.

  2. Naturally-occurring, dually-functional fusions between restriction endonucleases and regulatory proteins.

    Science.gov (United States)

    Liang, Jixiao; Blumenthal, Robert M

    2013-10-02

    Restriction-modification (RM) systems appear to play key roles in modulating gene flow among bacteria and archaea. Because the restriction endonuclease (REase) is potentially lethal to unmethylated new host cells, regulation to ensure pre-expression of the protective DNA methyltransferase (MTase) is essential to the spread of RM genes. This is particularly true for Type IIP RM systems, in which the REase and MTase are separate, independently-active proteins. A substantial subset of Type IIP RM systems are controlled by an activator-repressor called C protein. In these systems, C controls the promoter for its own gene, and for the downstream REase gene that lacks its own promoter. Thus MTase is expressed immediately after the RM genes enter a new cell, while expression of REase is delayed until sufficient C protein accumulates. To study the variation in and evolution of this regulatory mechanism, we searched for RM systems closely related to the well-studied C protein-dependent PvuII RM system. Unexpectedly, among those found were several in which the C protein and REase genes were fused. The gene for CR.NsoJS138I fusion protein (nsoJS138ICR, from the bacterium Niabella soli) was cloned, and the fusion protein produced and partially purified. Western blots provided no evidence that, under the conditions tested, anything other than full-length fusion protein is produced. This protein had REase activity in vitro and, as expected from the sequence similarity, its specificity was indistinguishable from that for PvuII REase, though the optimal reaction conditions were different. Furthermore, the fusion was active as a C protein, as revealed by in vivo activation of a lacZ reporter fusion to the promoter region for the nsoJS138ICR gene. Fusions between C proteins and REases have not previously been characterized, though other fusions have (such as between REases and MTases). These results reinforce the evidence for impressive modularity among RM system proteins, and raise

  3. Global Albedo Variations on Mars from Recent MRO/MARCI and Other Space-Based Observations

    Science.gov (United States)

    Bell, J. F., III; Wellington, D. F.

    2017-12-01

    Dramatic changes in Mars surface albedo have been quantified by telescopic, orbital, and surface-based observations over the last 40 years. These changes provide important inputs for global and mesoscale climate models, enabling characterization of seasonal and secular variations in the distribution of mobile surface materials (dust, sand) in the planet's current climate regime. Much of the modern record of dust storms and albedo changes comes from synoptic-scale global imaging from the Viking Orbiter, Mars Global Surveyor (MGS), Hubble Space Telescope (HST), and Mars Reconnaissance Orbiter (MRO) missions, as well as local-scale observations from long-lived surface platforms like the Spirit and Opportunity rovers. Here we focus on the substantial time history of global-scale images acquired from the MRO Mars Color Imager (MARCI). MARCI is a wide-angle multispectral imager that acquires daily coverage of most of the surface at up to 1 km/pixel. MARCI has been in orbit since 2006, providing six Mars years of continuous surface and atmospheric observations, and building on the nearly five previous Mars years of global-scale imaging from the MGS Mars Orbiter Camera Wide Angle (MOC/WA) imager, which operated from 1997 to 2006. While many of the most significant MARCI-observed changes in the surface albedo are the result of large dust storms, other regions experience seasonal darkening events that repeat with different degrees of annual regularity. Some of these are associated with local dust storms, while for others, frequent surface changes take place with no associated evidence for dust storms, suggesting action by seasonally-variable winds and/or small-scale storms/dust devils too small to resolve. Discrete areas of dramatic surface changes across widely separated regions of Tharsis and in portions of Solis Lacus and Syrtis Major are among the regions where surface changes have been observed without a direct association to specific detectable dust storm events

  4. Whole genome resequencing of black Angus and Holstein cattle for SNP and CNV discovery

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    Stothard Paul

    2011-11-01

    Full Text Available Abstract Background One of the goals of livestock genomics research is to identify the genetic differences responsible for variation in phenotypic traits, particularly those of economic importance. Characterizing the genetic variation in livestock species is an important step towards linking genes or genomic regions with phenotypes. The completion of the bovine genome sequence and recent advances in DNA sequencing technology allow for in-depth characterization of the genetic variations present in cattle. Here we describe the whole-genome resequencing of two Bos taurus bulls from distinct breeds for the purpose of identifying and annotating novel forms of genetic variation in cattle. Results The genomes of a Black Angus bull and a Holstein bull were sequenced to 22-fold and 19-fold coverage, respectively, using the ABI SOLiD system. Comparisons of the sequences with the Btau4.0 reference assembly yielded 7 million single nucleotide polymorphisms (SNPs, 24% of which were identified in both animals. Of the total SNPs found in Holstein, Black Angus, and in both animals, 81%, 81%, and 75% respectively are novel. In-depth annotations of the data identified more than 16 thousand distinct non-synonymous SNPs (85% novel between the two datasets. Alignments between the SNP-altered proteins and orthologues from numerous species indicate that many of the SNPs alter well-conserved amino acids. Several SNPs predicted to create or remove stop codons were also found. A comparison between the sequencing SNPs and genotyping results from the BovineHD high-density genotyping chip indicates a detection rate of 91% for homozygous SNPs and 81% for heterozygous SNPs. The false positive rate is estimated to be about 2% for both the Black Angus and Holstein SNP sets, based on follow-up genotyping of 422 and 427 SNPs, respectively. Comparisons of read depth between the two bulls along the reference assembly identified 790 putative copy-number variations (CNVs. Ten

  5. Jak różnicować wymioty u noworodków i niemowląt? Część IV. Metaboliczne, endokrynologiczne i sercowo-naczyniowe przyczyny wymiotów

    Directory of Open Access Journals (Sweden)

    Zbigniew Krenc

    2014-03-01

    Full Text Available Wymioty u niemowląt są często obserwowanym objawem chorobowym, o bardzo zróżnicowanym podłożu patogenetycznym. Do rzadkich przyczyn wymiotów w tej grupie wiekowej należą choroby metaboliczne i endokrynologiczne, a wyjątkowo także schorzenia układu sercowo-naczyniowego. Do chorób metabolicznych przebiegających ze zwracaniem pokarmu należą zaburzenia metabolizmu białek, m.in. fenyloketonuria, leucynoza, zaburzenia cyklu mocznikowego i kwasice organiczne. Wymioty w zaburzeniach metabolizmu węglowodanów, takie jak galaktozemia czy fruktozemia, mają bezpośredni związek z wprowadzeniem do posiłków źle tolerowanych cukrów. Chociaż objawy ze strony przewodu pokarmowego rzadko towarzyszą defektom metabolizmu tłuszczów, to mogą pojawiać się w niektórych przypadkach wrodzonych zaburzeń beta-oksydacji kwasów tłuszczowych oraz w zespole Smitha-Lemliego-Opitza. W diagnostyce wymiotów u niemowląt należy także uwzględnić przyczyny jatrogenne, np. hiperkalcemię spowodowaną zatruciem witaminą D3. Wśród endokrynologicznych czynników zwracania pokarmu u niemowląt na pierwszy plan wysuwają się choroby występujące pod wspólną nazwą zespołu utraty soli, w tym wrodzony przerost kory nadnerczy, najczęściej wywoływany niedoborem 21-hydroksylazy. Do bardzo rzadkich przyczyn wymiotów u najmłodszych dzieci należą choroby układu sercowo-naczyniowego związane z uszkodzeniem miokardium (zawał serca, zapalenie mięśnia sercowego. Z kolei anomalie anatomiczne wielkich pni tętniczych wraz z ich odgałęzieniami (pierścienie naczyniowe mogą powodować zaburzenia połykania oraz wymioty w wyniku ucisku na przełyk. Także w obrazie klinicznym nagłego stanu nadciśnieniowego, rozwijającego się u niemowląt w przebiegu chorób naczyniowo-nerkowych, uszkodzenia miąższu nerek czy koarktacji aorty, mogą dominować nudności i wymioty.

  6. A comparative study of k-spectrum-based error correction methods for next-generation sequencing data analysis.

    Science.gov (United States)

    Akogwu, Isaac; Wang, Nan; Zhang, Chaoyang; Gong, Ping

    2016-07-25

    . Further extensive studies are warranted to assess these methods using experimental datasets generated by NGS platforms (e.g., 454, SOLiD, and Ion Torrent) under more diversified parameter settings (k-mer values and edit distances) and to compare them against other non-k-spectrum-based classes of error correction methods.

  7. Hymenobacter perfusus sp. nov., Hymenobacter flocculans sp. nov. and Hymenobacter metalli sp. nov. three new species isolated from an uranium mine waste water treatment system.

    Science.gov (United States)

    Chung, Ana Paula; Lopes, André; Nobre, M Fernanda; Morais, Paula V

    2010-12-01

    Three red-pink pigmented strains, designated A1-12(T), A2-50A(T) and A2-91(T), were recovered from two different sites in a uranium mine. For all strains, the optimum growth temperature was 25°C, the optimum pH was 6.0-6.5 and the DNA G+C contents were between 60 and 63.4 mol%. The major respiratory quinone was menaquinone 7 (MK-7) and the fatty acid profiles contained iso- and anteiso-branched C15 fatty acids, summed feature 3 (16:1 ω6c and/or ω7c and/or 15:0 iso 2-OH), summed feature 4 (17:1 anteiso B and/or iso I) and the unsaturated fatty acid 16:1 ω5c as the major components. Phylogenetic analysis of the 16S rRNA gene sequences showed that these organisms represented three distinct branches within the family Flexibacteraceae most closely related to the members of the genus Hymenobacter. Strain A1-12(T) formed a distinct phylogenetic line along with H. rigui KCTC 12533(T) and they shared approximately 98.9% 16S rRNA gene sequence similarity. However, these two strains shared only 14.7% pairwise similarity in their genomic DNA. Strains A2-50A(T) and A2-91(T) formed two distinct lineages, related to the species H. soli KCTC 12607(T), sharing about 95.5% 16S rRNA gene sequence similarity between themselves, and 88.3 and 92.0% with other members of the genus Hymenobacter. Based on the phylogenetic analysis and physiological and biochemical characteristics, these isolates were considered to represent three novel species for which we propose the names Hymenobacter perfusus for strain A1-12(T) (=CIP 110166=LMG 26000), Hymenobacter flocculans for strain A2-50A(T) (=CIP 110139=LMG 25699) and Hymenobacter metalli for strain A2-91(T) (=CIP 110140=LMG 25700). Copyright © 2010 Elsevier GmbH. All rights reserved.

  8. Molecular detection of Acinetobacter species in lice and keds of domestic animals in Oromia Regional State, Ethiopia.

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    Bersissa Kumsa

    Full Text Available This study was conducted to determine the presence of Acinetobacter and Rickettsia species DNA in lice and Melophagus ovinus (sheep ked of animals from Oromia Regional State in Ethiopia. From September through November 2011, a total of 207 cattle, 85 sheep, 47 dogs and 16 cats were examined for ectoparasites. Results of morphological identification revealed several species of ectoparasites: Linognathus vituli (L. vituli, Bovicola bovis (B. bovis and Solenopotes capillatus (S. capillatus on cattle; B. ovis and Melophagus ovinus (M. ovinus on sheep; and Heterodoxus spiniger (H. spiniger on dogs. There was a significantly (p≤0.0001 higher prevalence of L. vituli observed in cattle than both S. capillatus and B. bovis. Molecular identification of lice using an 18S rRNA gene analysis confirms the identified lice species by morphological methods. We detected different Acinetobacter species among lice (11.1% and keds (86.4% including A. soli in L. vituli of cattle, A. lowffii in M. ovinus of sheep, A. pittii in H. spiniger of dogs, 1 new Acinetobacter spp. in M. ovinus and 2 new Acinetobacter spp. in H. spiniger of dogs using partial rpoB gene sequence analysis. There was a significantly higher prevalence of Acinetobacter spp. in keds than in lice (p≤0.00001. Higher percentage of Acinetobacter spp. DNA was detected in H. spiniger than in both B. ovis and L. vituli (p≤0.00001. Carbapenemase resistance encoding genes for blaOXA-23, blaOXA-24, blaOXA-58, blaNDM-1 and blaOXA-51 were not found in any lice and keds. These findings suggest that synanthropic animals and their ectoparasites might increase the risk of human exposure to zoonotic pathogens and could be a source for Acinetobacter spp. infections in humans. However, additional epidemiological data are required to determine whether ectoparasites of animals can act as environmental reservoirs and play a role in spreading these bacteria to both animal and human hosts.

  9. Avaliação de parâmetros hidráulicos e manejo da irrigação por microaspersão em área de assentamento Hydraulic parameters evaluation and management of microsprinkler irrigation in settlement area

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    Fábio S. Santiago

    2004-12-01

    Full Text Available Este trabalho foi desenvolvido em solo aluvial do semi-árido de Pernambuco, suscetível à salinização, visando a orientar agricultores de assentamento para instalar, avaliar e manejar racionalmente sistemas de irrigação por microaspersão, para atender ao plantio da cultivar de repolho Midori. Adotando-se percentagem de área molhada igual a 100%, foram avaliados nos setores da unidade operacional a variação de vazão e pressão, os coeficientes de uniformidade (CU e a eficiência de aplicação (EA. A uniformidade da irrigação apresentou valores elevados, superiores a 93%. A eficiência de aplicação foi boa, com valores maiores que 80%. O sistema foi então utilizado na irrigação, utilizando como controle o tanque "Classe A", durante um período de 75 dias, e conduzido por um agricultor local. Considerando os riscos de salinização na área, promoveu-se lavagem contínua do solo. Foi adotado um coeficiente de lixiviação médio de 1,21, com desvio-padrão de 0,45, para o período sem precipitação. Praticamente em todo o experimento, o sentido do gradiente de potencial total da água do solo foi ascendente, com média de 1,14 e 0,21 de desvio-padrão. Preveniu-se com isso a ocorrência de ascensões capilares, estabelecendo-se um perfil drenante, bem como se manteve a condutividade elétrica da zona saturada em equilíbrio. Não foi observada a saturação do solo na zona radicular.This study has been carried out in alluvial area in the semi-arid zone of Pernambuco State, Brazil, subject to salinisation, aiming to guide local farmers to install, evaluate and to manage micro sprinkler irrigation systems, raising Midori cabbage cultivar. Adopting the area percentage of wetted soli 100% the sub units have been evaluated regarding the discharge and pressure variation, and also coefficients of uniformity (CU and efficiency of application coefficient (EA. The irrigation uniformity was high, greater than 93%. The efficiency of

  10. Chumbo no sangue de crianças e passivo ambiental de uma fundição de chumbo no Brasil Blood lead levels in children and environmental legacy of a lead foundry in Brazil

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    Fernando Martins Carvalho

    2003-01-01

    Full Text Available OBJETIVO: Determinar os níveis de chumbo no sangue de crianças que moravam próximo a uma fundição de chumbo desativada na Cidade de Santo Amaro da Purificação, Estado da Bahia, em setembro de 1998; e identificar fatores associados à variação destes níveis. MÉTODOS: Estudo de corte transversal com crianças de 1 a 4 anos de idade que residiam a menos de 1 km da fundição. Mães ou responsáveis por 47 crianças responderam questionários sobre transtornos do hábito alimentar (comer barro, terra, reboco ou outros materiais e outros aspectos epidemiológicos relevantes. A concentração de chumbo no sangue foi determinada por espectrofotometria de absorção atômica. RESULTADOS: O nível médio de chumbo foi de 17,1 ± 7,3 mig/dL. Os níveis de chumbo no sangue foram cerca de 5 mig/dL mais elevados em crianças que tinham transtorno do hábito alimentar, independentemente da idade, presença de escória visível no peridomicílio, situação de emprego do pai, história familiar de intoxicação pelo chumbo e desnutrição. CONCLUSÕES: O passivo ambiental da fundição de chumbo, desativada em 1993, permanece como um fator de risco relevante para elevar os níveis desse metal no sangue de crianças, particularmente aquelas que apresentam transtornos do hábito alimentar.OBJECTIVE: To determine the blood lead levels in children living an inactive lead foundry in the city of Santo Amaro da Purificação,state of Bahia, in September of 1998; and to identify factors associated with differences in these levels. METHODS: Cross-sectional study with children between 1 and 4 years of age living within 1 km of the lead foundry. Mothers or guardians of 47 children answered a questionnaire concerning ingestion of clay, soli, plaster and / or other materias (pica,and other relevant epidemiological aspects. The concentration of lead in blood was determined by atermined by atomic absorption espectrophotometry. RESULTS: The mean lead level was 17

  11. LE STAZIONI DI APPRENDIMENTO: ESEMPI DIDATTICI PER UN APPROCCIO DI TIPO GLOBALE ALL’INSEGNAMENTO DELLA LINGUA ITALIANA A STRANIERI

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    Antonietta Gobbis

    2015-02-01

    Full Text Available Il metodo, che si rifà alle teorie pedagogiche di Maria Montessori (1870-1952, è un esempio di lezione “aperta” fondato su pratiche che attivano la sfera emozionale, sensoriale e relazionale oltre a quella logico-razionale della mente. Nel processo di apprendimento di conoscenze acquisite non solo attraverso l’ascolto delle parole dell’insegnante, ma anche attraverso esperienze scelte autonomamente e consapevolmente da soli e in gruppo, l’ambiente delle stazioni didattiche offre tutto il materiale di sviluppo cognitivo in maniera che sia liberamente fruibile dal discente per favorirne la socializzazione e l’autonomia (secondo il motto di Maria Montessori ‘Aiutami a fare da solo’. A lezione esse non solo offrono varietà, comunicazione e divertimento ma, e in ciò è il loro massimo pregio, differenziazione interna al gruppo degli studenti, che possono, senza alcuna pressione da parte dei compagni, lavorare al proprio ritmo e livello scegliendogli esercizi secondo le preferenze individuali lungo un percorso aperto a canali diversi di apprendimento e orientato ad un vivace interscambio con gli altri.Il nostro contributo fa riferimento a tre esempi di stazioni didattiche legate alle feste che più richiamano l’attenzione degli studenti stranieri sul nostro paese: il Natale e il Carnevale. Tali tematiche mostrano come il modello della stazioni didattiche riesca a rapportarsi al vissuto degli studenti motivandoli al raffronto interculturale. Le abbiamo sperimentate in gruppi di studenti dell’Università delle Lingue Mondiali di Tashkent che frequentano il primo e secondo anno del corso di Italiano, studiato come seconda lingua.   Learning stations: didactic examples for a global teaching method This method, based on Maria Montessori’s educational theories, is an example of “open” lessons based on activities that activate emotions, senses and relationships, besides logic and reason. In the learning process knowledge is

  12. microRNA regulatory mechanism by which PLLA aligned nanofibers influence PC12 cell differentiation

    Science.gov (United States)

    Yu, Yadong; Lü, Xiaoying; Ding, Fei

    2015-08-01

    Objective. Aligned nanofibers (AFs) are regarded as promising biomaterials in nerve tissue engineering. However, a full understanding of the biocompatibility of AFs at the molecular level is still challenging. Therefore, the present study focused on identifying the microRNA (miRNA)-mediated regulatory mechanism by which poly-L-lactic acid (PLLA) AFs influence PC12 cell differentiation. Approach. Firstly, the effects of PLLA random nanofibers (RFs)/AFs and PLLA films (control) on the biological responses of PC12 cells that are associated with neuronal differentiation were examined. Then, SOLiD sequencing and cDNA microarray were employed to profile the expressions of miRNAs and mRNAs. The target genes of the misregulated miRNAs were predicted and compared with the mRNA profile data. Functions of the matched target genes (the intersection between the predicted target genes and the experimentally-determined, misregulated genes) were analyzed. Main results. The results revealed that neurites spread in various directions in control and RF groups. In the AF group, most neurites extended in parallel with each other. The glucose consumption and lactic acid production in the RF and AF groups were higher than those in the control group. Compared with the control group, 42 and 94 miRNAs were significantly dysregulated in the RF and AF groups, respectively. By comparing the predicted target genes with the mRNA profile data, five and 87 matched target genes were found in the RF and AF groups, respectively. Three of the matched target genes in the AF group were found to be associated with neuronal differentiation, whereas none had this association in the RF group. The PLLA AFs induced the dysregulation of miRNAs that regulate many biological functions, including axonal guidance, lipid metabolism and long-term potentiation. In particular, two miRNA-matched target gene-biological function modules associated with neuronal differentiation were identified as follows: (1) miR-23b, mi

  13. Trudności terapeutyczne u pacjenta z ciężką postacią młodzieńczego zapalenia skórno-mięśniowego powikłanego uogólnioną wapnicą

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    Joanna Szymańska-Kałuża

    2011-08-01

    Full Text Available Młodzieńcze zapalenie skórno-mięśniowe (MZSM to najczęstszaidiopatyczna miopatia zapalna wieku dziecięcego. Do charakterystycznychobjawów tej choroby należą: osłabienie mięśni, głównieobręczy barkowej lub biodrowej, oraz zmiany skórne w postaciobrzęku twarzy, heliotropowego zabarwienia powiek, zmian plamisto-rumieniowych na twarzy i klatce piersiowej. W badaniachlaboratoryjnych typowe dla MZSM są podwyższone wskaźnikiostrej fazy, wysoka aktywność enzymów mięśniowych (aminotransferaz,kinazy kreatynowej oraz dehydrogenazy mleczanowej,a także czasami obecność przeciwciał anty-Jo1. Badanie elektromiograficznewykazuje cechy pierwotnego uszkodzenia mięśni,a w obrazie histopatologicznym wycinka skórno-mięśniowegoodnotowuje się nacieki zapalne. U dzieci często obserwowane sątakże ogniska zwapnień w tkankach miękkich, prowadzące doatrofii mięśni i przykurczów stawowych.Leczeniem I rzutu u pacjentów z MZSM są glikokortykosteroidy,w przypadku nieskuteczności tej terapii stosuje się leki immunosupresyjnelub leki biologiczne, w tym immunoglobuliny.W pracy przedstawiono przypadek pacjenta z ciężkim przebiegiemMZSM powikłanego wapnicą, z uwzględnieniem objawów klinicznychi możliwości leczenia. Omówiono również trudności w doborzenajskuteczniejszej farmakoterapii dla tego pacjenta. U chorego– obecnie 14-letniego chłopca – występowały uogólnione zmianyskórne oraz bardzo gwałtownie narastające liczne złogi soli wapniaw skórze, tkance podskórnej, powięziach i mięśniach, które pojawiły się po 3 latach od wystąpienia pierwszych objawów chorobowych(ryc. 1–8. U chłopca z powodu wybitnie ciężkiego przebieguchoroby prowadzono agresywną konwencjonalną terapię(glikokortykosteroidy, metotreksat, cyklosporyna, pamidronian,która nie przynosiła zadowalających rezultatów i poprawy stanuklinicznego. Na podstawie doniesień z piśmiennictwa światowegopodjęto próbę leczenia

  14. Spatial and temporal variation in marine birds in the north Gulf of Alaska: The value of marine bird monitoring within Gulf Watch Alaska

    Science.gov (United States)

    Kuletz, Kathy J.; Esler, Daniel N.

    2015-01-01

    Birds offer useful insights into marine ecosystems. Marine birds are responsive to spatial and temporal variation in the environment, that often originates with fluctuations in oceanographic and climatic drivers and permeates up through food webs to conspicuous top predators such as seabirds (Coyle and Pinchuk 2005, Speckman et al. 2005, Gonzales-Solis et al. 2009, Cushing et al., this report). In that way, marine birds are excellent assimilators, samplers, and indicators of the status of marine environments (Montevecchi 1993, Piatt et al. 2007b, Zador et al. 2013). Marine bird responses to dynamic marine ecosystems can be detected in a variety of metrics, including abundance, distribution, and productivity. For example, in the northern Gulf of Alaska (GOA), decadal-scale variation in oceanographic conditions has been associated with dramatic shifts in prey composition and abundance (Anderson and Piatt 1999). In turn, these shifts were more closely correlated with changes in abundance of fish-eating birds of Prince William Sound (PWS), such as pigeon guillemots (Golet et al. 2002) and marbled and Kittlitz’s murrelets (Kuletz et al. 2011a, 2011b), than in the abundance of species that primarily consume plankton or benthic prey (Agler et al. 1999, Cushing et al., this report). Birds also are responsive to anthropogenic influences in marine environments, including commercial fishing, contamination, introduction of non-native species, coastal development, offshore resource extraction, and vessel traffic. A major anthropogenic perturbation in the northern GOA was the 1989 Exxon Valdez oil spill, in which marine birds suffered high immediate mortality (Piatt and Ford 1996). Additionally, several species showed long-term evidence of declines in the oiled areas of PWS (Lance et al. 2001), as well as impacts to reproductive success years later (Golet et al. 2002). However, the degree of direct impact and vulnerability to chronic injury, which was related to exposure to

  15. Transcriptome sequencing for SNP discovery across Cucumis melo

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    Blanca José

    2012-06-01

    Full Text Available Abstract Background Melon (Cucumis melo L. is a highly diverse species that is cultivated worldwide. Recent advances in massively parallel sequencing have begun to allow the study of nucleotide diversity in this species. The Sanger method combined with medium-throughput 454 technology were used in a previous study to analyze the genetic diversity of germplasm representing 3 botanical varieties, yielding a collection of about 40,000 SNPs distributed in 14,000 unigenes. However, the usefulness of this resource is limited as the sequenced genotypes do not represent the whole diversity of the species, which is divided into two subspecies with many botanical varieties variable in plant, flowering, and fruit traits, as well as in stress response. As a first step to extensively document levels and patterns of nucleotide variability across the species, we used the high-throughput SOLiD™ system to resequence the transcriptomes of a set of 67 genotypes that had previously been selected from a core collection representing the extant variation of the entire species. Results The deep transcriptome resequencing of all of the genotypes, grouped into 8 pools (wild African agrestis, Asian agrestis and acidulus, exotic Far Eastern conomon, Indian momordica and Asian dudaim and flexuosus, commercial cantalupensis, subsp. melo Asian and European landraces, Spanish inodorus landraces, and Piel de Sapo breeding lines yielded about 300 M reads. Short reads were mapped to the recently generated draft genome assembly of the DHL line Piel de Sapo (inodorus x Songwhan Charmi (conomon and to a new version of melon transcriptome. Regions with at least 6X coverage were used in SNV calling, generating a melon collection with 303,883 variants. These SNVs were dispersed across the entire C. melo genome, and distributed in 15,064 annotated genes. The number and variability of in silico SNVs differed considerably between pools. Our finding of higher genomic diversity in wild

  16. Zasady żywienia dzieci w drugim i trzecim roku życia

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    Adam J. Sybilski

    2010-11-01

    Full Text Available W artykule przedstawiono aktualny stan wiedzy na temat zasad żywienia dzieci w 2. i 3. roku życia. W okresie poniemowlęcym zapotrzebowanie energetyczne dziecka zmniejsza się do ok. 90 kcal/kg mc./dobę. Zmianie ulega również tempo jego wzrostu. Połowa energii wydatkowana jest na potrzeby aktywności fizycznej, więc potrzeby żywieniowe dziecka są od nich uzależnione. Rozkład podaży energii pozabiałkowej powinien wynosić 60-65% z węglowodanów i 35-40% z tłuszczu. Należy zadbać o stopniowe wzbogacanie diety o kwasy tłuszczowe (NNKT, zawarte w olejach roślinnych, tłustych rybach morskich, orzechach oraz zielonych warzywach. Do 2. roku życia zalecana jest dieta bogata w tłuszcze, głównie pochodzące z masła, następnie należy stopniowo ograniczać tłuszcze zwierzęce, aby uniknąć otyłości. Dziecku nie należy podawać tłustych mięs oraz surowych jaj, gdyż zawierają one awidynę. Do 3. roku życia korzystniejsze jest podawanie mieszanek mlecznych typu „junior” niż pełnego mleka krowiego. Rekomendowane produkty zbożowe zawierające węglowodany to przede wszystkim pieczywo razowe oraz grube kasze. Zapotrzebowanie na płyny u małego dziecka wynosi ok. 950 ml/dobę. Najlepsze do picia są woda, niesłodzone herbatki ziołowe i naturalne soki owocowe. Ważna jest też forma, czyli w jaki sposób przyjmowane są pokarmy. Należy kształtować w dziecku dobre nawyki i przyzwyczajenia związane z jedzeniem, kierując się zasadą 4U: urozmaicenie, umiar, unikanie i uregulowanie. Obecnie można zauważyć poprawę w stanie odżywienia polskich dzieci, choć nadal sposób ich żywienia bywa niezadowalający. Do najczęstszych błędów zalicza się nadmierne używanie soli, mało urozmaiconą dietę, brak czasu i zniecierpliwienie w czasie posiłków, nerwową atmosferę w czasie posiłków oraz nadmierne rozdrabnianie produktów.

  17. Micromammiferi del Parco Regionale di Monte Cucco (Perugia

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    A.M. Paci

    2003-10-01

    >Microtus ?Terricola? sp. riferibili alle specie subterraneus e multiplex che, al momento, si è preferito omettere dall?elenco in quanto oggetto di studi più accurati tutt?ora in corso. Mancano invece, a dispetto dell?atteso, Sorex araneus, i Neomys sp, Microtus arvalis e Rattus rattus, che rappresenteranno sicuramente il tema principale dei prossimi lavori unitamente a Chyonomys nivalis, ancora da accertare in Umbria. È da sottolineare che, nonostante l?indagine non sia stata caratterizzata da metodiche pianificate, si sono ottenute molte informazioni grazie alla disponibilità di alcuni boli di Barbagianni Tyto alba che hanno fornito da soli il 50% delle specie in elenco e permesso di determinare quegli animali, generalmente diffusi ma difficilmente individuabili attraverso indici di campo, quali i topiragno, le arvicole e i topi selvatici.

  18. Editorial

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    Javier Hernández-Fernández

    2015-12-01

    rapidez y bajado los costos exponencialmente. Tres tecnologías de NGS son utilizadas masivamente, aunque ya hay disponibles otros métodos que no son igualmente utilizados. 454 GSFlex de Roche, Genome Analyzer o HiSeq de Illumina y SOLiD de Life Technologies que con sus mejoras y su bajo costo han permitido en casi todo el planeta dar inicio a un número inusitado de proyectos que en últimas buscan inventariar todos los genes del mundo. Recientemente el mercado ofrece versiones de equipos NGS con características un poco limitadas en rendimiento y capacidad de secuenciación, pero más fácilmente utilizables por la comunidad de investigadores, y, además, orientados a un segmento de mercado diferente. Entre ellos tenemos: los equipos 454 GS Junior de Roche, MiSeq Personal Sequencer de Illumina e Ion Torrent de Life Technologies

  19. Indicadores de qualidade de solos de área de mineração e metalurgia de chumbo: II - Mesofauna e plantas Soil quality indicators in lead mining and metalurgy area: II - Mesofauna and plants

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    Yara Jurema Barros

    2010-08-01

    riqueza de grupos de organismos e ocorrência de representantes dos grupos Pseudoscorpiones, Mollusca e Isopoda apenas nesse solo. Os grupos Aracnídeos e Psocoptera também foram considerados bons indicadores ambientais, com incremento de suas populações nos solos com maiores teores de metais pesados (solos 2, 3 e 5, possivelmente devido à menor ocorrência de organismos competidores/predadores desses grupos. Os teores de metais pesados nos indivíduos do grupo Formicidae tiveram relação direta com os teores de Pb extraídos com HNO3 0,5 mol L-1 no solo. Quanto ao acúmulo de metais pesados nas plantas coletadas na área, com exceção do solo 1, todas as espécies encontravam-se sob efeito fitotóxico para Pb e Zn, o que sugere a proibição de pastejo na área.The influence of soil management or the contaminant application to the soil, usually induce to a quicker response in the soil mesofauna than in other pedogenic properties; these organisms are therefore good environmental quality indicators. The aim of this study was to identify and quantify the organisms groups of the soil mesofauna and determine Pb and Zn contents in plants in the mining and metallurgy plant in Adrianópolis (PR,to originate biological indicators of the quality of these solis. At the selected locations the following contamination forms were analized: site 1 - reference (native wood; site 2 - residue incorporated in the profile; sites 3 and 6 - close to the chimneys of the plant, with potential import of particulate matter; site 5 - great waste volume covering the soil. Berlese funnels were utilized to collect samples from the 0 to 5 cm layer (20 funnels x 5 sites x 1 layer x 4 times = 400 samples. After the separation of the mesofauna, the organisms were selected and identified. Ants samples were microwave digested with concentrated HNO3 and the Pb, Cu, Ni and Zn contents were determined by inductively coupled plasma - atomic emission Spectrometry (ICP-AES. Plants from Poaceae family were

  20. Hepatocellular carcinoma. Comparison between gadolinium and ironoxide enhanced MR imaging; Risonanza Magnetica epatica ed epatocarcinoma. Confronto fra risultati ottenuti con mezzo di contrasto paramagnetico (gadolinio) e superparamagnetico (particelle di ossido di ferro)

    Energy Technology Data Exchange (ETDEWEB)

    Castoldi, M.C.; Fauda, V.; Scaramuzza, D.; Vergnaghi, D. [Ospedale S. Carlo Borromeo, Milan (Italy). Servizio di Radiologia

    2000-09-01

    soli 3 casi le sequenze TSE T2 pesate hanno avuto rilevanza diagnostica rispetto a quelle GE. Con tecnica TSE sono risultate pero' ben evidenti alcune caratteristiche morfologiche dei noduli (presenza di capsula, di setti, di componenti a diversa differenziazione cellulare), non riconoscibili nelle immagini GE. L'associazione di sequenze TSE T2 pesate e GE T1-T2* pesate dopo mdc ferroso, si e' rivelata piu' sensibile della RM dinamica con gadolinio condotta con sequenza GE (percentuale di identificazione rispettivamente del 97,7 e 75%). I risultati ottenuti, favorevoli all'impiego di mdc ferrosi nell'epatocarcinoma, sono almeno in parte da mettere in relazione alle nostre condizioni di studio e cioe': 1) alla disponibilita' di campo magnetico da 1,0 T, 2) al tipo di esame di RM eseguito dopo mdc ferrosi (utilizzazione di sequenze GE con pesatura T1-T2* e di immagini assiali e sagittali), 3) alla scarsa rappresentazione percentuale di cirrosi di grado elevato nella casistica.

  1. Influenze lunguistiche romanze nello sloveno letterario di Trieste. La lingua di Boris Pahor

    Directory of Open Access Journals (Sweden)

    Mitja Skubic

    1984-12-01

    Full Text Available L'autore esamina la lingua dello scritto e t iestino Boris Pahor, urio de li eminenti creatori letterari in sloveno del secondo dopoguerra. Gli anni di scuola ed una  parte della giovinezza di Boris Pahor, nato nel 1913, appartengono ad un periodo nel quale lo sloveno a Trieste, e nelle province di Trieste       e di Gorizia, non godeva di uno  status pubblico ufficiale, salvo in chiesa. L influsso linguistico dell'italiano, normale in un territorio etnicamente e linguisticamente misto, spinto in una situazione anormale, creatasi nel primo  dopoguerra, non sorprende. Lo scrittore fu in  stretto contratto con l'italiano e il legame linguistico (e certo anche culturale è 'di doppia natura: esisstono, da una parte, influenze della parlata locale triestina -veneta, con qualche venatura tergestina, vale a dire friulana; dell'altra, lo scrittore ebbe a subire numerose influenze dell'italiano letterario. Non è facile scindere queste due fonti dei romanismi linguistici, che chiamiamo genericamente italianismi; il termine è fallace, perchè è fallace la grafia la quale rare volte palesa l'origine veneta: ščaveta, škojera, mandrijer, čožotska bragoca. L'interesse di questo contributo si concentra su prestiti, per lo più adattati al sistema fono-morfologico che vige per lo sloveno, e, soprattutto7 su calchi, quelli semantici e quelli sintattici. Una quantità non trascurabile di calchi ci convince della loro provenienza popolare, del fatto, cioe, che bisogna cer­ carne l'origine nel contatto linguistico diretto delle due etnie. Il materiale raccolto contraddice, dunaue. l'asserzione alquanto apodittica della provenienza popolare, immediata, dei soli presti­ ti e della provenienz letteraria, dotta, dei calchi. I calchi semantici sono parecchi: si tratta sempre dell'uso di un termine sloveno che in sloveno letterario e nei dialetti centrali esiste, ma che in Pahor viene usato con un significate sconosciuto allo sloveno centrale

  2. Western cratonic domains in Uruguay, geochronology

    International Nuclear Information System (INIS)

    Preciozzi, F; Pell, E; Muzio, R; Ledesma, J.J; Guerequiz, R

    2001-01-01

    The western cratonic domains in Uruguay are divided into three major units: Piedra Alta Terrane, Valentines Block and Pavas Terrane. Piedra Alta Terrane lacks of evidence of Neo proterozoic oro geneses (deformation, metamorphism or magmatism). Sarandi del Yi - Arroyo Solis Grande shear zone, separates it from Valentines Block. Valentines Block is separated from Pavas Terrane by Cueva del Tigre shear zone. Magmatic rocks with different ages, compositions and emplacements occur all over the Piedra Alta Terrane distributed in three metamorphic belts (Arroyo Grande, San Jose and Montevideo) as well as in the Central Gneissic-Migmatitic Complex. Samples from the gneissic-migmatitic complex, late tectonic granitoids and basic rocks associated to the metamorphic belts were analyzed using Rb/Sr, U/Pb, K/Ar and Sm/Nd methodologies. The age ranges obtained for granitoids and gneissicmigmatitic samples using Rb/Sr whole rock (WR) systematics are 1.7 to 2.5 Ga, showing two intervals: 1.9 to 2.05 Ga (intrusion of late granites) and 2.1 to 2.2 Ga (deformation and metamorphism). K/Ar cooling ages present several ranges: 1.3 to 1.35 Ga (probable local heating of the crust), 1.7 to 1.8 Ga (microgabbro magmatism, data confirmed by the Ar/Ar method) and ages between 2.0 to 2.2 Ga. Rb/Sr (WR) data yielded an isochronic age of 2094 ± 28.3 Ma, Ro = 0.70174 ± 0.00009, MSWD 19.74, interpreted as the time of the metamorphic event recognized for all the Piedra Alta Terrane. TDM Sm/Nd model ages presented a range from 2065 Ma to 2450 Ma. U/Pb systematics yield ages in migmatitic and gneissic rocks from 2.16 Ga to 2.21 Ga, showing metamorphism and deformation phenomena. While the ages of granitoids associated to the San Jose Belt are between 2.06 Ga and 2.08 Ga (Isla Mala) to 2.1 Ga (Granito de Cufre). None of them show metamorphic phenomena. Valentines Block (Preciozzi et al., 1979) comprises granulitic gneisses, granitoids and mafic rocks of different compositions. The geologic complexity

  3. Book Reviews

    Directory of Open Access Journals (Sweden)

    Redactie KITLV

    1997-01-01

    NJ: Africa World Press, 1993. xxv + 115 pp. -Sandra Burr, Gretchen Gerzina, Black London: Life before emancipation. New Brunswick NJ: Rutgers University Press, 1995. xii + 244 pp. -Carlene J. Edie, Trevor Munroe, The cold war and the Jamaican Left 1950-1955: Reopening the files. Kingston: Kingston Publishers, 1992. xii + 242 pp. -Carlene J. Edie, David Panton, Jamaica's Michael Manley: The great transformation (1972-92. Kingston: Kingston Publishers, 1993. xx + 225 pp. -Percy C. Hintzen, Cary Fraser, Ambivalent anti-colonialism: The United States and the genesis of West Indian independence, 1940-1964. Westport CT: Greenwood, 1994. vii + 233 pp. -Anthony J. Payne, Carlene J. Edie, Democracy in the Caribbean: Myths and realities. Westport CT: Praeger, 1994. xvi + 296 pp. -Alma H. Young, Jean Grugel, Politics and development in the Caribbean basin: Central America and the Caribbean in the New World Order. Bloomington: Indiana University Press, 1995. xii + 270 pp. -Alma H. Young, Douglas G. Lockhart ,The development process in small island states. London: Routledge, 1993. xv + 275 pp., David Drakakis-Smith, John Schembri (eds -Virginia Heyer Young, José Solis, Public school reform in Puerto Rico: Sustaining colonial models of development. Westport CT: Greenwood Press, 1994. x + 171 pp. -Carolyn Cooper, Christian Habekost, Verbal Riddim: The politics and aesthetics of African-Caribbean Dub poetry. Amsterdam: Rodopi, 1993. vii + 262 pp. -Clarisse Zimra, Jaqueline Leiner, Aimé Césaire: Le terreau primordial. Tübingen: Gunter Narr Verlag, 1993. 175 pp. -Clarisse Zimra, Abiola Írélé, Aimé Césaire: Cahier d'un retour au pays natal. With introduction, commentary and notes. Abiola Írélé. Ibadan: New Horn Press, 1994. 158 pp. -Alvina Ruprecht, Stella Algoo-Baksh, Austin C. Clarke: A biography. Barbados: The Press - University of the West Indies; Toronto: ECW Press, 1994. 234 pp. -Sue N. Greene, Glyne A. Griffith, Deconstruction, imperialism and the West Indian novel