Sample records for branch fdab code

  1. Flight Dynamics Analysis Branch

    NASA Technical Reports Server (NTRS)

    Stengle, Tom; Flores-Amaya, Felipe

    2000-01-01

    This report summarizes the major activities and accomplishments carried out by the Flight Dynamics Analysis Branch (FDAB), Code 572, in support of flight projects and technology development initiatives in fiscal year 2000. The report is intended to serve as a summary of the type of support carried out by the FDAB, as well as a concise reference of key accomplishments and mission experience derived from the various mission support roles. The primary focus of the FDAB is to provide expertise in the disciplines of flight dynamics, spacecraft trajectory, attitude analysis, and attitude determination and control. The FDAB currently provides support for missions and technology development projects involving NASA, government, university, and private industry.

  2. Flight Dynamics Analysis Branch End of Fiscal Year 2002 Report

    NASA Technical Reports Server (NTRS)

    Mangus, David (Editor); Mendelsohn, Chad (Editor); Starin, Scott (Editor); Stengle, Tom (Editor); Truong, Son (Editor)

    2002-01-01

    This report summarizes the major activities and accomplishments carried out by the Flight Dynamics Analysis Branch (FDAB), Code 572, in support of flight projects and technology development initiatives in Fiscal Year (FY) 2002. The report is intended to serve as a summary of the type of support carried out by the FDAB, as well as a concise reference of key accomplishments and mission experience derived from the various mission support roles. The primary focus of the FDAB is to provide expertise in the disciplines of flight dynamics including navigation, spacecraft trajectory design, attitude analysis, attitude determination and attitude control. The FDAB currently provides support for missions and technology development projects involving NASA, government, university, and private industry.

  3. Flight Dynamics Analysis Branch End of Fiscal Year 1999 Report

    NASA Technical Reports Server (NTRS)

    Stengle, T.; Flores-Amaya, F.

    2000-01-01

    This report summarizes the major activities and accomplishments carried out by the Flight Dynamics Analysis Branch (FDAB), Code 572, in support of flight projects and technology development initiatives in Fiscal Year (FY) 1999. The report is intended to serve as a summary of the type of support carried out by the FDAB, as well as a concise reference of key analysis results and mission experience derived from the various mission support roles. The primary focus of the FDAB is to provide expertise in the discipline of flight dynamics, which involves spacecraft trajectory (orbit) and attitude analysis, as well as orbit and attitude determination and control. The FDAB currently provides support for missions involving NASA, government, university, and commercial space missions, at various stages in the mission life cycle.

  4. Flight Dynamics Analysis Branch 2005 Technical Highlights

    NASA Technical Reports Server (NTRS)

    2005-01-01

    This report summarizes the major activities and accomplishments carried out by the Flight Dynamics Analysis Branch (FDAB), Code 595, in support of flight projects and technology development initiatives in Fiscal Year (FY) 2005. The report is intended to serve as a summary of the type of support carried out by the FDAB, as well as a concise reference of key accomplishments and mission experience derived from the various mission support roles. The primary focus of the FDAB is to provide expertise in the disciplines of flight dynamics including spacecraft navigation (autonomous and ground based); spacecraft trajectory design and maneuver planning; attitude analysis; attitude determination and sensor calibration; and attitude control subsystem (ACS) analysis and design. The FDAB currently provides support for missions and technology development projects involving NASA, other government agencies, academia, and private industry.

  5. Flight Dynamics Analysis Branch End of Fiscal Year 2004 Report

    NASA Technical Reports Server (NTRS)

    DeLion, Anne (Editor); Stengle, Thomas

    2005-01-01

    This report summarizes the major activities and accomplishments carried out by the Flight Dynamics Analysis Branch (FDAB), Code 595, in support of flight projects and technology development initiatives in Fiscal Year (FY) 2004. The report is intended to serve as a summary of the type of support carried out by the FDAB, as well as a concise reference of key accomplishments and mission experience derived from the various mission support roles. The primary focus of the FDAB is to provide expertise in the disciplines of flight dynamics including spacecraft navigation (autonomous and ground based); spacecraft trajectory design and maneuver planning; attitude analysis; attitude determination and sensor calibration; and attitude control subsystem (ACS) analysis and design. The FDAB currently provides support for missions and technology development projects involving NASA, other government agencies, academia, and private industry.

  6. Flight Dynamics Analysis Branch End of Fiscal Year 2005 Report

    NASA Technical Reports Server (NTRS)

    2006-01-01

    This report summarizes the major activities and accomplishments carried out by the Flight Dynamics Analysis Branch (FDAB), Code 595, in support of flight projects and technology development initiatives in Fiscal Year (FY) 2005. The report is intended to serve as a summary of the type of support carried out by the FDAB, as well as a concise reference of key accomplishments and mission experience derived from the various mission support roles. The primary focus of the FDAB is to provide expertise in the disciplines of flight dynamics including spacecraft navigation (autonomous and ground based), spacecraft trajectory design and maneuver planning, attitude analysis, attitude determination and sensor calibration, and attitude control subsystem (ACS) analysis and design. The FDAB currently provides support for missions and technology development projects involving NASA, other government agencies, academia, and private industry.

  7. Flight Dynamics Analysis Branch End of Fiscal Year 1999 Report

    NASA Technical Reports Server (NTRS)

    Stengle, Thomas; Flores-Amaya, Felipe

    1999-01-01

    This document summarizes the major activities and accomplishments carried out by the Goddard Space Flight Center (GSFC)'s Flight Dynamics Analysis Branch (FDAB), Code 572, in support of flight projects and technology development initiatives in Fiscal Year (FY) 1999. The document is intended to serve as both an introduction to the type of support carried out by the FDAB (Flight Dynamics Analysis Branch), as well as a concise reference summarizing key analysis results and mission experience derived from the various mission support roles assumed over the past year. The major accomplishments in the FDAB in FY99 were: 1) Provided flight dynamics support to the Lunar Prospector and TRIANA missions among a variety of spacecraft missions; 2) Sponsored the Flight Mechanics Symposium; 3) Supported the Consultative Committee for Space Data Systems (CCSDS) workshops; 4) Performed numerous analyses and studies for future missions; 5) Started the Flight Dynamics Analysis Branch Lab for in-house mission analysis and support; and 6) Complied with all requirements in support of GSFC IS09000 certification.

  8. STK/Lifetime as a Replacement for Heritage Orbital Lifetime Software

    NASA Technical Reports Server (NTRS)

    Dove, Edwin

    2004-01-01

    The Flight Dynamics Analysis Branch (FDAB) of NASNGSFC is tasked with determining the orbital lifetime of several developmental and operational satellites, which include the Hubble Space Telescope. A DOS based program developed by the FDAB many years ago, called PC Lifetime, is used to determine a satellite s lifetime and could soon be in need of a replacement. STK s Lifetime Object Tool is a possible candidate. Due to the reduced support of the PC Lifetime program, and the growing incompatibility of older programs with new operating systems, a comparative analysis was done to determine if STWLifetime could meet the stringent requirements that were laid before it. The use of highly accurate numerical propagators such as STK s High Precision Orbit Propagator ( OP) and the Goddard Trajectory Determination System (GTDS) provided a basis on which to compare STWLifetime s results. Several test cases were run, but the main four test cases would determine whether or not STWLifetime could be PC- Lifetime s replacement. These four cases include a geotransfer orbit, two circular LEOS, and a Poiar LEO. Following rigorous testmg procedures, a conclusion will be determined. STK has proved to be a versatile program on many satellite missions and the FDAB has high hopes that it can pass FDAB s requirements for orbital lifetime prediction.

  9. Investigation of Models and Estimation Techniques for GPS Attitude Determination

    NASA Technical Reports Server (NTRS)

    Garrick, J.

    1996-01-01

    Much work has been done in the Flight Dynamics Analysis Branch (FDAB) in developing algorithms to met the new and growing field of attitude determination using the Global Positioning SYstem (GPS) constellation of satellites. Flight Dynamics has the responsibility to investigate any new technology and incorporate the innovations in the attitude ground support systems developed to support future missions. The work presented here is an investigative analysis that will produce the needed adaptation to allow the Flight Dynamics Support System (FDSS) to incorporate GPS phase measurements and produce observation measurements compatible with the FDSS. A simulator was developed to produce the necessary measurement data to test the models developed for the different estimation techniques used by FDAB. This paper gives an overview of the current modeling capabilities of the simulator models and algorithms for the adaptation of GPS measurement data and results from each of the estimation techniques. Future analysis efforts to evaluate the simulator and models against inflight GPS measurement data are also outlined.

  10. Dynamic wavefront creation for processing units using a hybrid compactor

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

    Puthoor, Sooraj; Beckmann, Bradford M.; Yudanov, Dmitri

    A method, a non-transitory computer readable medium, and a processor for repacking dynamic wavefronts during program code execution on a processing unit, each dynamic wavefront including multiple threads are presented. If a branch instruction is detected, a determination is made whether all wavefronts following a same control path in the program code have reached a compaction point, which is the branch instruction. If no branch instruction is detected in executing the program code, a determination is made whether all wavefronts following the same control path have reached a reconvergence point, which is a beginning of a program code segment tomore » be executed by both a taken branch and a not taken branch from a previous branch instruction. The dynamic wavefronts are repacked with all threads that follow the same control path, if all wavefronts following the same control path have reached the branch instruction or the reconvergence point.« less

  11. Flowfield computer graphics

    NASA Technical Reports Server (NTRS)

    Desautel, Richard

    1993-01-01

    The objectives of this research include supporting the Aerothermodynamics Branch's research by developing graphical visualization tools for both the branch's adaptive grid code and flow field ray tracing code. The completed research for the reporting period includes development of a graphical user interface (GUI) and its implementation into the NAS Flowfield Analysis Software Tool kit (FAST), for both the adaptive grid code (SAGE) and the flow field ray tracing code (CISS).

  12. Counter Tunnel Project

    DTIC Science & Technology

    2014-03-01

    ADMINISTRATIVE INFORMATION The work described in this report was performed by the Unmanned Systems Science & Technology Branch (Code 71710) and the...Unmanned Systems Advanced Development Branch (Code 71720), Space and Naval Warfare Systems Center Pacific (SSC Pacific), San Diego, CA, and the Air...Earth™ is a trademark of Google Inc. Released by T. Pastore, Head Unmanned Systems Science & Technology Branch Under authority of A. D

  13. Multiple Trellis Coded Modulation (MTCM): An MSAT-X report

    NASA Technical Reports Server (NTRS)

    Divsalar, D.; Simon, M. K.

    1986-01-01

    Conventional trellis coding outputs one channel symbol per trellis branch. The notion of multiple trellis coding is introduced wherein more than one channel symbol per trellis branch is transmitted. It is shown that the combination of multiple trellis coding with M-ary modulation yields a performance gain with symmetric signal set comparable to that previously achieved only with signal constellation asymmetry. The advantage of multiple trellis coding over the conventional trellis coded asymmetric modulation technique is that the potential for code catastrophe associated with the latter has been eliminated with no additional cost in complexity (as measured by the number of states in the trellis diagram).

  14. A generalized one-dimensional computer code for turbomachinery cooling passage flow calculations

    NASA Technical Reports Server (NTRS)

    Kumar, Ganesh N.; Roelke, Richard J.; Meitner, Peter L.

    1989-01-01

    A generalized one-dimensional computer code for analyzing the flow and heat transfer in the turbomachinery cooling passages was developed. This code is capable of handling rotating cooling passages with turbulators, 180 degree turns, pin fins, finned passages, by-pass flows, tip cap impingement flows, and flow branching. The code is an extension of a one-dimensional code developed by P. Meitner. In the subject code, correlations for both heat transfer coefficient and pressure loss computations were developed to model each of the above mentioned type of coolant passages. The code has the capability of independently computing the friction factor and heat transfer coefficient on each side of a rectangular passage. Either the mass flow at the inlet to the channel or the exit plane pressure can be specified. For a specified inlet total temperature, inlet total pressure, and exit static pressure, the code computers the flow rates through the main branch and the subbranches, flow through tip cap for impingement cooling, in addition to computing the coolant pressure, temperature, and heat transfer coefficient distribution in each coolant flow branch. Predictions from the subject code for both nonrotating and rotating passages agree well with experimental data. The code was used to analyze the cooling passage of a research cooled radial rotor.

  15. Coset Codes Viewed as Terminated Convolutional Codes

    NASA Technical Reports Server (NTRS)

    Fossorier, Marc P. C.; Lin, Shu

    1996-01-01

    In this paper, coset codes are considered as terminated convolutional codes. Based on this approach, three new general results are presented. First, it is shown that the iterative squaring construction can equivalently be defined from a convolutional code whose trellis terminates. This convolutional code determines a simple encoder for the coset code considered, and the state and branch labelings of the associated trellis diagram become straightforward. Also, from the generator matrix of the code in its convolutional code form, much information about the trade-off between the state connectivity and complexity at each section, and the parallel structure of the trellis, is directly available. Based on this generator matrix, it is shown that the parallel branches in the trellis diagram of the convolutional code represent the same coset code C(sub 1), of smaller dimension and shorter length. Utilizing this fact, a two-stage optimum trellis decoding method is devised. The first stage decodes C(sub 1), while the second stage decodes the associated convolutional code, using the branch metrics delivered by stage 1. Finally, a bidirectional decoding of each received block starting at both ends is presented. If about the same number of computations is required, this approach remains very attractive from a practical point of view as it roughly doubles the decoding speed. This fact is particularly interesting whenever the second half of the trellis is the mirror image of the first half, since the same decoder can be implemented for both parts.

  16. Implementation of context independent code on a new array processor: The Super-65

    NASA Technical Reports Server (NTRS)

    Colbert, R. O.; Bowhill, S. A.

    1981-01-01

    The feasibility of rewriting standard uniprocessor programs into code which contains no context-dependent branches is explored. Context independent code (CIC) would contain no branches that might require different processing elements to branch different ways. In order to investigate the possibilities and restrictions of CIC, several programs were recoded into CIC and a four-element array processor was built. This processor (the Super-65) consisted of three 6502 microprocessors and the Apple II microcomputer. The results obtained were somewhat dependent upon the specific architecture of the Super-65 but within bounds, the throughput of the array processor was found to increase linearly with the number of processing elements (PEs). The slope of throughput versus PEs is highly dependent on the program and varied from 0.33 to 1.00 for the sample programs.

  17. Automated Diversity in Computer Systems

    DTIC Science & Technology

    2005-09-01

    traces that started with trace heads , namely backwards- taken branches. These branches are indicative of loops within the program, and Dynamo assumes that...would be the ones the program would normally take. Therefore when a trace head became hot (was visited enough times), only a single code trace would...all encountered trace heads . When an interesting instruction is being emulated, the tracing code checks to see if it has been encountered before

  18. NASA. Lewis Research Center Advanced Modulation and Coding Project: Introduction and overview

    NASA Technical Reports Server (NTRS)

    Budinger, James M.

    1992-01-01

    The Advanced Modulation and Coding Project at LeRC is sponsored by the Office of Space Science and Applications, Communications Division, Code EC, at NASA Headquarters and conducted by the Digital Systems Technology Branch of the Space Electronics Division. Advanced Modulation and Coding is one of three focused technology development projects within the branch's overall Processing and Switching Program. The program consists of industry contracts for developing proof-of-concept (POC) and demonstration model hardware, university grants for analyzing advanced techniques, and in-house integration and testing of performance verification and systems evaluation. The Advanced Modulation and Coding Project is broken into five elements: (1) bandwidth- and power-efficient modems; (2) high-speed codecs; (3) digital modems; (4) multichannel demodulators; and (5) very high-data-rate modems. At least one contract and one grant were awarded for each element.

  19. Evaluation of Evidence for Altered Behavior and Auditory Deficits in Fishes Due to Human-Generated Noise Sources

    DTIC Science & Technology

    2006-04-01

    prepared by the Research and Animal Care Branch, Code 2351, of the Biosciences Division, Code 235, SSC San Diego. This is a work of the United...and Animal Care Branch Under authority of M. Rothe, Head Biosciences Division i EXECUTIVE SUMMARY In this study, we have evaluated peer... sharks , skates, and rays) and teleost fishes (modern bony fishes) and provide recommendations for research to address remaining issues. Clear responses

  20. Equipment Readiness Code Rule System (ERCRULES)

    DTIC Science & Technology

    1988-06-01

    Food inspection...CAA-SR-88-14 branch = ahs and equipment = ’Water quality set"’ or equipment = ’ Food inspection set’ then erc-assigned = [unitcriticalfacility,’ERC A...8217,𔃿.5.15𔃻. if not branch = qms and not branch = ahs and equipment = ’Water quality set’’ or equipment = ’ Food inspection set’ then

  1. Validation of CFD/Heat Transfer Software for Turbine Blade Analysis

    NASA Technical Reports Server (NTRS)

    Kiefer, Walter D.

    2004-01-01

    I am an intern in the Turbine Branch of the Turbomachinery and Propulsion Systems Division. The division is primarily concerned with experimental and computational methods of calculating heat transfer effects of turbine blades during operation in jet engines and land-based power systems. These include modeling flow in internal cooling passages and film cooling, as well as calculating heat flux and peak temperatures to ensure safe and efficient operation. The branch is research-oriented, emphasizing the development of tools that may be used by gas turbine designers in industry. The branch has been developing a computational fluid dynamics (CFD) and heat transfer code called GlennHT to achieve the computational end of this analysis. The code was originally written in FORTRAN 77 and run on Silicon Graphics machines. However the code has been rewritten and compiled in FORTRAN 90 to take advantage of more modem computer memory systems. In addition the branch has made a switch in system architectures from SGI's to Linux PC's. The newly modified code therefore needs to be tested and validated. This is the primary goal of my internship. To validate the GlennHT code, it must be run using benchmark fluid mechanics and heat transfer test cases, for which there are either analytical solutions or widely accepted experimental data. From the solutions generated by the code, comparisons can be made to the correct solutions to establish the accuracy of the code. To design and create these test cases, there are many steps and programs that must be used. Before a test case can be run, pre-processing steps must be accomplished. These include generating a grid to describe the geometry, using a software package called GridPro. Also various files required by the GlennHT code must be created including a boundary condition file, a file for multi-processor computing, and a file to describe problem and algorithm parameters. A good deal of this internship will be to become familiar with these programs and the structure of the GlennHT code. Additional information is included in the original extended abstract.

  2. Code 672 observational science branch computer networks

    NASA Technical Reports Server (NTRS)

    Hancock, D. W.; Shirk, H. G.

    1988-01-01

    In general, networking increases productivity due to the speed of transmission, easy access to remote computers, ability to share files, and increased availability of peripherals. Two different networks within the Observational Science Branch are described in detail.

  3. Security Police Officer Utilization Field, AFSCs 8111, 8116, 8121, and 8124.

    DTIC Science & Technology

    1981-06-01

    STATEMENT A M C Approved for public release 82 0 4 26Distribution Unlimited C=DCC=D= APS 8 1 X CECI I CODING INSTRUCTIONS -- -- -" Print the booklet copy...m == NAME (Last, First, Middle Initial) DATE OF BIRTH SEX YR NO DAY (MALE -"(11-34) (3s-5- rayo (41) PRESENT GRADE: SOCIAL SECURITY ACCOUNT NUMBER...Branch - 11. OIC Missile Support Branch - __m 12. OIC Weapons Systems Security , 4 8 CODE 99 X ~.t ! AFS 81XX -mmm -C - . .’ .9 - =, BACKGROUND

  4. An alpha-numeric code for representing N-linked glycan structures in secreted glycoproteins.

    PubMed

    Yusufi, Faraaz Noor Khan; Park, Wonjun; Lee, May May; Lee, Dong-Yup

    2009-01-01

    Advances in high-throughput techniques have led to the creation of increasing amounts of glycome data. The storage and analysis of this data would benefit greatly from a compact notation for describing glycan structures that can be easily stored and interpreted by computers. Towards this end, we propose a fixed-length alpha-numeric code for representing N-linked glycan structures commonly found in secreted glycoproteins from mammalian cell cultures. This code, GlycoDigit, employs a pre-assigned alpha-numeric index to represent the monosaccharides attached in different branches to the core glycan structure. The present branch-centric representation allows us to visualize the structure while the numerical nature of the code makes it machine readable. In addition, a difference operator can be defined to quantitatively differentiate between glycan structures for further analysis. The usefulness and applicability of GlycoDigit were demonstrated by constructing and visualizing an N-linked glycosylation network.

  5. Surface Modeling and Grid Generation of Orbital Sciences X34 Vehicle. Phase 1

    NASA Technical Reports Server (NTRS)

    Alter, Stephen J.

    1997-01-01

    The surface modeling and grid generation requirements, motivations, and methods used to develop Computational Fluid Dynamic volume grids for the X34-Phase 1 are presented. The requirements set forth by the Aerothermodynamics Branch at the NASA Langley Research Center serve as the basis for the final techniques used in the construction of all volume grids, including grids for parametric studies of the X34. The Integrated Computer Engineering and Manufacturing code for Computational Fluid Dynamics (ICEM/CFD), the Grid Generation code (GRIDGEN), the Three-Dimensional Multi-block Advanced Grid Generation System (3DMAGGS) code, and Volume Grid Manipulator (VGM) code are used to enable the necessary surface modeling, surface grid generation, volume grid generation, and grid alterations, respectively. All volume grids generated for the X34, as outlined in this paper, were used for CFD simulations within the Aerothermodynamics Branch.

  6. Computer program for stress, stability, and vibration of complex branched shells of revolution: BOSOR 4

    NASA Technical Reports Server (NTRS)

    Bushnell, D.

    1974-01-01

    Code is easy to use yet is general with respect to: (a) type of analysis to be performed; (b) geometry of shell meridian; (c) type of wall construction; (d) type of boundary conditions, ring supports, and branching configuration; and (e) type of loading.

  7. Electromagnetic Dissociation Cross Sections using Weisskopf-Ewing Theory

    NASA Technical Reports Server (NTRS)

    Adamczyk, Anne M.; Norbury, John W.

    2011-01-01

    It is important that accurate estimates of crew exposure to radiation are obtained for future long-term space missions. Presently, several space radiation transport codes exist to predict the radiation environment, all of which take as input particle interaction cross sections that describe the nuclear interactions between the particles and the shielding material. The space radiation transport code HZETRN uses the nuclear fragmentation model NUCFRG2 to calculate Electromagnetic Dissociation (EMD) cross sections. Currently, NUCFRG2 employs energy independent branching ratios to calculate these cross sections. Using Weisskopf-Ewing (WE) theory to calculate branching ratios, however, is more advantageous than the method currently employed in NUCFRG2. The WE theory can calculate not only neutron and proton emission, as in the energy independent branching ratio formalism used in NUCFRG2, but also deuteron, triton, helion, and alpha particle emission. These particles can contribute significantly to total exposure estimates. In this work, photonuclear cross sections are calculated using WE theory and the energy independent branching ratios used in NUCFRG2 and then compared to experimental data. It is found that the WE theory gives comparable, but mainly better agreement with data than the energy independent branching ratio. Furthermore, EMD cross sections for single neutron, proton, and alpha particle removal are calculated using WE theory and an energy independent branching ratio used in NUCFRG2 and compared to experimental data.

  8. NWS Marine, Tropical, and Tsunami Services Branch Feedback

    Science.gov Websites

    Service NWS logo - Click to go to the NWS homepage Marine Forecasts Marine Forecasts Home News Organization Search Landlubber's forecast: "City, St" or zip code (Pan/Zoom for Marine) Search by Office Marine, Tropical, and Tsunami Services Branch Items of Interest Marine Forecasts Text, Graphic

  9. On complexity of trellis structure of linear block codes

    NASA Technical Reports Server (NTRS)

    Lin, Shu

    1990-01-01

    The trellis structure of linear block codes (LBCs) is discussed. The state and branch complexities of a trellis diagram (TD) for a LBC is investigated. The TD with the minimum number of states is said to be minimal. The branch complexity of a minimal TD for a LBC is expressed in terms of the dimensions of specific subcodes of the given code. Then upper and lower bounds are derived on the number of states of a minimal TD for a LBC, and it is shown that a cyclic (or shortened cyclic) code is the worst in terms of the state complexity among the LBCs of the same length and dimension. Furthermore, it is shown that the structural complexity of a minimal TD for a LBC depends on the order of its bit positions. This fact suggests that an appropriate permutation of the bit positions of a code may result in an equivalent code with a much simpler minimal TD. Boolean polynomial representation of codewords of a LBC is also considered. This representation helps in study of the trellis structure of the code. Boolean polynomial representation of a code is applied to construct its minimal TD. Particularly, the construction of minimal trellises for Reed-Muller codes and the extended and permuted binary primitive BCH codes which contain Reed-Muller as subcodes is emphasized. Finally, the structural complexity of minimal trellises for the extended and permuted, and double-error-correcting BCH codes is analyzed and presented. It is shown that these codes have relatively simple trellis structure and hence can be decoded with the Viterbi decoding algorithm.

  10. 78 FR 23629 - Office of Commercial Space Transportation; Notice of Availability and Request for Comment on the...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-04-19

    ... with the National Environmental Policy Act of 1969, as amended (NEPA; 42 United States Code [U.S.C... Public Library Main Branch, 2600 Central Blvd. Southmost Branch Library, 4320 Southmost Blvd. University of Texas at Brownsville, Oliveira Library, 80 Fort Brown St. The FAA will hold a public hearing to...

  11. 3 CFR 13490 - Executive Order 13490 of January 21, 2009. Ethics Commitments by Executive Branch Personnel

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 3 The President 1 2010-01-01 2010-01-01 false Executive Order 13490 of January 21, 2009. Ethics... Order 13490 of January 21, 2009 EO 13490 Ethics Commitments by Executive Branch Personnel By the... Code, it is hereby ordered as follows: Section 1. Ethics Pledge. Every appointee in every executive...

  12. 76 FR 5611 - Notice of Availability of the Environmental Assessment for the Short Term Sentences Acquisition

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-02-01

    ... action alternatives and the No Action Alternative. Natural, cultural, and socioeconomic resource impacts.... Cohn, Chief, or Issac J. Gaston, Site Selection Specialist, Capacity Planning and Site Selection Branch..., Capacity Planning and Site Selection Branch. [FR Doc. 2011-1817 Filed 1-31-11; 8:45 am] BILLING CODE P ...

  13. Role of TCP Gene BRANCHED1 in the Control of Shoot Branching in Arabidopsis.

    PubMed

    Poza-Carrión, César; Aguilar-Martínez, José Antonio; Cubas, Pilar

    2007-11-01

    Branching patterns are major determinants of plant architecture. They depend both on leaf phillotaxy (branch primordia are formed in the axils of leaves) and on the decision of buds to grow out to give a branch or to remain dormant. In Arabidopsis, several genes involved in the long-distance signalling of the control of branch outgrowth have been identified. However, the genes acting inside the buds to cause growth arrest remained unknown until now. In the February issue of Plant Cell we have described the function of BRANCHED1 (BRC1), an Arabidopsis gene coding for a plant-specific transcription factor of the TCP family that is expressed in the buds and prevents their development. Loss of BRC1 function leads to accelerated AM initiation, precocious progression of bud development and excess of shoot branching. BRC1 transcription is affected by endogenous and environmental signals controlling branching and we have shown that BRC1 function mediates the response to these stimuli. Therefore we have proposed that BRC1 function represents the point at which signals controlling branching are integrated within axillary buds.

  14. 48 CFR 204.7005 - Assignment of order codes.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... Identification Numbers 204.7005 Assignment of order codes. (a) The Defense Logistics Agency, Acquisition Policy...-1000 Air Force: SAF/AQCI, 1060 Air Force Pentagon, Washington, DC 20330-1060 Defense Logistics Agency: Defense Logistics Agency, Acquisition Policy Branch (J-3311), John J. Kingman Road, Fort Belvoir, VA 22060...

  15. Validation of NASA Thermal Ice Protection Computer Codes Part 2 - LEWICE/Thermal

    DOT National Transportation Integrated Search

    1996-01-01

    The Icing Technology Branch at NASA Lewis has been involved in an effort to validate two thermal ice protection codes developed at the NASA Lewis Research Center: LEWICE/Thermal 1 (electrothermal de-icing and anti-icing), and ANTICE 2 (hot gas and el...

  16. The Intersection of the Extrinsic Hedgehog and WNT/Wingless Signals with the Intrinsic Hox Code Underpins Branching Pattern and Tube Shape Diversity in the Drosophila Airways

    PubMed Central

    Matsuda, Ryo; Hosono, Chie; Saigo, Kaoru; Samakovlis, Christos

    2015-01-01

    The tubular networks of the Drosophila respiratory system and our vasculature show distinct branching patterns and tube shapes in different body regions. These local variations are crucial for organ function and organismal fitness. Organotypic patterns and tube geometries in branched networks are typically controlled by variations of extrinsic signaling but the impact of intrinsic factors on branch patterns and shapes is not well explored. Here, we show that the intersection of extrinsic hedgehog(hh) and WNT/wingless (wg) signaling with the tube-intrinsic Hox code of distinct segments specifies the tube pattern and shape of the Drosophila airways. In the cephalic part of the airways, hh signaling induces expression of the transcription factor (TF) knirps (kni) in the anterior dorsal trunk (DTa1). kni represses the expression of another TF spalt major (salm), making DTa1 a narrow and long tube. In DTa branches of more posterior metameres, Bithorax Complex (BX-C) Hox genes autonomously divert hh signaling from inducing kni, thereby allowing DTa branches to develop as salm-dependent thick and short tubes. Moreover, the differential expression of BX-C genes is partly responsible for the anterior-to-posterior gradual increase of the DT tube diameter through regulating the expression level of Salm, a transcriptional target of WNT/wg signaling. Thus, our results highlight how tube intrinsic differential competence can diversify tube morphology without changing availabilities of extrinsic factors. PMID:25615601

  17. Multidimensional Trellis Coded Phase Modulation Using a Multilevel Concatenation Approach. Part 1; Code Design

    NASA Technical Reports Server (NTRS)

    Rajpal, Sandeep; Rhee, Do Jun; Lin, Shu

    1997-01-01

    The first part of this paper presents a simple and systematic technique for constructing multidimensional M-ary phase shift keying (MMK) trellis coded modulation (TCM) codes. The construction is based on a multilevel concatenation approach in which binary convolutional codes with good free branch distances are used as the outer codes and block MPSK modulation codes are used as the inner codes (or the signal spaces). Conditions on phase invariance of these codes are derived and a multistage decoding scheme for these codes is proposed. The proposed technique can be used to construct good codes for both the additive white Gaussian noise (AWGN) and fading channels as is shown in the second part of this paper.

  18. National Program for Inspection of Non-Federal Dams. Williams Pond Dam (CT 00551), Thames River Basin, Lebanon, Connecticut. Phase I Inspection Program.

    DTIC Science & Technology

    1978-10-01

    GRA&I UnTucea B WILLIAMS POND DAM ~~1Z~ CT 00551 _ Distribution/ Availabilit Y Codes Avail and/or Dis~tj pecialS RIVER BASIN ~lIILEBANON, COXNNECTICUT...Inspection Report. Alternatives to these recommendations r 1 would include reducing the Williams Pond water levels during expected periods of intense storm...Materials Branch Engi’neering Division FRED J. VNS. Jr., Member Chief, De ’ggn Branch Engineering Division SAUL COOPER, -r Chief, Water Control Branch

  19. Branch-pipe-routing approach for ships using improved genetic algorithm

    NASA Astrophysics Data System (ADS)

    Sui, Haiteng; Niu, Wentie

    2016-09-01

    Branch-pipe routing plays fundamental and critical roles in ship-pipe design. The branch-pipe-routing problem is a complex combinatorial optimization problem and is thus difficult to solve when depending only on human experts. A modified genetic-algorithm-based approach is proposed in this paper to solve this problem. The simplified layout space is first divided into threedimensional (3D) grids to build its mathematical model. Branch pipes in layout space are regarded as a combination of several two-point pipes, and the pipe route between two connection points is generated using an improved maze algorithm. The coding of branch pipes is then defined, and the genetic operators are devised, especially the complete crossover strategy that greatly accelerates the convergence speed. Finally, simulation tests demonstrate the performance of proposed method.

  20. ADAPT

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

    Reynolds, John; Jankovsky, Zachary; Metzroth, Kyle G

    2018-04-04

    The purpose of the ADAPT code is to generate Dynamic Event Trees (DET) using a user specified set of simulators. ADAPT can utilize any simulation tool which meets a minimal set of requirements. ADAPT is based on the concept of DET which uses explicit modeling of the deterministic dynamic processes that take place during a nuclear reactor plant system (or other complex system) evolution along with stochastic modeling. When DET are used to model various aspects of Probabilistic Risk Assessment (PRA), all accident progression scenarios starting from an initiating event are considered simultaneously. The DET branching occurs at user specifiedmore » times and/or when an action is required by the system and/or the operator. These outcomes then decide how the dynamic system variables will evolve in time for each DET branch. Since two different outcomes at a DET branching may lead to completely different paths for system evolution, the next branching for these paths may occur not only at separate times, but can be based on different branching criteria. The computational infrastructure allows for flexibility in ADAPT to link with different system simulation codes, parallel processing of the scenarios under consideration, on-line scenario management (initiation as well as termination), analysis of results, and user friendly graphical capabilities. The ADAPT system is designed for a distributed computing environment; the scheduler can track multiple concurrent branches simultaneously. The scheduler is modularized so that the DET branching strategy can be modified (e.g. biasing towards the worst-case scenario/event). Independent database systems store data from the simulation tasks and the DET structure so that the event tree can be constructed and analyzed later. ADAPT is provided with a user-friendly client which can easily sort through and display the results of an experiment, precluding the need for the user to manually inspect individual simulator runs.« less

  1. tRNA acceptor stem and anticodon bases form independent codes related to protein folding

    PubMed Central

    Carter, Charles W.; Wolfenden, Richard

    2015-01-01

    Aminoacyl-tRNA synthetases recognize tRNA anticodon and 3′ acceptor stem bases. Synthetase Urzymes acylate cognate tRNAs even without anticodon-binding domains, in keeping with the possibility that acceptor stem recognition preceded anticodon recognition. Representing tRNA identity elements with two bits per base, we show that the anticodon encodes the hydrophobicity of each amino acid side-chain as represented by its water-to-cyclohexane distribution coefficient, and this relationship holds true over the entire temperature range of liquid water. The acceptor stem codes preferentially for the surface area or size of each side-chain, as represented by its vapor-to-cyclohexane distribution coefficient. These orthogonal experimental properties are both necessary to account satisfactorily for the exposed surface area of amino acids in folded proteins. Moreover, the acceptor stem codes correctly for β-branched and carboxylic acid side-chains, whereas the anticodon codes for a wider range of such properties, but not for size or β-branching. These and other results suggest that genetic coding of 3D protein structures evolved in distinct stages, based initially on the size of the amino acid and later on its compatibility with globular folding in water. PMID:26034281

  2. Phylogenetic relationships of Hemiptera inferred from mitochondrial and nuclear genes.

    PubMed

    Song, Nan; Li, Hu; Cai, Wanzhi; Yan, Fengming; Wang, Jianyun; Song, Fan

    2016-11-01

    Here, we reconstructed the Hemiptera phylogeny based on the expanded mitochondrial protein-coding genes and the nuclear 18S rRNA gene, separately. The differential rates of change across lineages may associate with long-branch attraction (LBA) effect and result in conflicting estimates of phylogeny from different types of data. To reduce the potential effects of systematic biases on inferences of topology, various data coding schemes, site removal method, and different algorithms were utilized in phylogenetic reconstruction. We show that the outgroups Phthiraptera, Thysanoptera, and the ingroup Sternorrhyncha share similar base composition, and exhibit "long branches" relative to other hemipterans. Thus, the long-branch attraction between these groups is suspected to cause the failure of recovering Hemiptera under the homogeneous model. In contrast, a monophyletic Hemiptera is supported when heterogeneous model is utilized in the analysis. Although higher level phylogenetic relationships within Hemiptera remain to be answered, consensus between analyses is beginning to converge on a stable phylogeny.

  3. Trellises and Trellis-Based Decoding Algorithms for Linear Block Codes. Part 3; A Recursive Maximum Likelihood Decoding

    NASA Technical Reports Server (NTRS)

    Lin, Shu; Fossorier, Marc

    1998-01-01

    The Viterbi algorithm is indeed a very simple and efficient method of implementing the maximum likelihood decoding. However, if we take advantage of the structural properties in a trellis section, other efficient trellis-based decoding algorithms can be devised. Recently, an efficient trellis-based recursive maximum likelihood decoding (RMLD) algorithm for linear block codes has been proposed. This algorithm is more efficient than the conventional Viterbi algorithm in both computation and hardware requirements. Most importantly, the implementation of this algorithm does not require the construction of the entire code trellis, only some special one-section trellises of relatively small state and branch complexities are needed for constructing path (or branch) metric tables recursively. At the end, there is only one table which contains only the most likely code-word and its metric for a given received sequence r = (r(sub 1), r(sub 2),...,r(sub n)). This algorithm basically uses the divide and conquer strategy. Furthermore, it allows parallel/pipeline processing of received sequences to speed up decoding.

  4. Coding/decoding and reversibility of droplet trains in microfluidic networks.

    PubMed

    Fuerstman, Michael J; Garstecki, Piotr; Whitesides, George M

    2007-02-09

    Droplets of one liquid suspended in a second, immiscible liquid move through a microfluidic device in which a channel splits into two branches that reconnect downstream. The droplets choose a path based on the number of droplets that occupy each branch. The interaction among droplets in the channels results in complex sequences of path selection. The linearity of the flow through the microchannels, however, ensures that the behavior of the system can be reversed. This reversibility makes it possible to encrypt and decrypt signals coded in the intervals between droplets. The encoding/decoding device is a functional microfluidic system that requires droplets to navigate a network in a precise manner without the use of valves, switches, or other means of external control.

  5. Trellis Coding of Non-coherent Multiple Symbol Full Response M-ary CPFSK with Modulation Index 1/M

    NASA Technical Reports Server (NTRS)

    Lee, H.; Divsalar, D.; Weber, C.

    1994-01-01

    This paper introduces a trellis coded modulation (TCM) scheme for non-coherent multiple full response M-ary CPFSK with modulation index 1/M. A proper branch metric for the trellis decoder is obtained by employing a simple approximation of the modified Bessel function for large signal to noise ratio (SNR). Pairwise error probability of coded sequences is evaluated by applying a linear approximation to the Rician random variable.

  6. Application of RNA-seq for mitogenome reconstruction, and reconsideration of long-branch artifacts in Hemiptera phylogeny.

    PubMed

    Song, Nan; An, Shiheng; Yin, Xinming; Cai, Wanzhi; Li, Hu

    2016-09-16

    Hemiptera make up the largest nonholometabolan insect assemblage. Despite previous efforts to elucidate phylogeny within this group, relationships among the major sub-lineages remain uncertain. In particular, mitochondrial genome (mitogenome) data are still sparse for many important hemipteran insect groups. Recent mitogenomic analyses of Hemiptera have usually included no more than 50 species, with conflicting hypotheses presented. Here, we determined the nearly complete nucleotide sequence of the mitogenome for the aphid species of Rhopalosiphum padi using RNA-seq plus gap filling. The 15,205 bp mitogenome included all mitochondrial genes except for trnF. The mitogenome organization and size for R. padi are similar to previously reported aphid species. In addition, the phylogenetic relationships for Hemiptera were examined using a mitogenomic dataset which included sequences from 103 ingroup species and 19 outgroup species. Our results showed that the seven species representing the Aleyrodidae exhibit extremely long branches, and always cluster with long-branched outgroups. This lead to the failure of recovering a monophyletic Hemiptera in most analyses. The data treatment of Degen-coding for protein-coding genes and the site-heterogeneous CAT model show improved suppression of the long-branch effect. Under these conditions, the Sternorrhyncha was often recovered as the most basal clade in Hemiptera.

  7. Application of RNA-seq for mitogenome reconstruction, and reconsideration of long-branch artifacts in Hemiptera phylogeny

    PubMed Central

    Song, Nan; An, Shiheng; Yin, Xinming; Cai, Wanzhi; Li, Hu

    2016-01-01

    Hemiptera make up the largest nonholometabolan insect assemblage. Despite previous efforts to elucidate phylogeny within this group, relationships among the major sub-lineages remain uncertain. In particular, mitochondrial genome (mitogenome) data are still sparse for many important hemipteran insect groups. Recent mitogenomic analyses of Hemiptera have usually included no more than 50 species, with conflicting hypotheses presented. Here, we determined the nearly complete nucleotide sequence of the mitogenome for the aphid species of Rhopalosiphum padi using RNA-seq plus gap filling. The 15,205 bp mitogenome included all mitochondrial genes except for trnF. The mitogenome organization and size for R. padi are similar to previously reported aphid species. In addition, the phylogenetic relationships for Hemiptera were examined using a mitogenomic dataset which included sequences from 103 ingroup species and 19 outgroup species. Our results showed that the seven species representing the Aleyrodidae exhibit extremely long branches, and always cluster with long-branched outgroups. This lead to the failure of recovering a monophyletic Hemiptera in most analyses. The data treatment of Degen-coding for protein-coding genes and the site-heterogeneous CAT model show improved suppression of the long-branch effect. Under these conditions, the Sternorrhyncha was often recovered as the most basal clade in Hemiptera. PMID:27633117

  8. Color Code: Using Hair Color to Make a Clear Connection between Genotype and Phenotype

    ERIC Educational Resources Information Center

    Bonner, J. Jose

    2011-01-01

    Students may wonder why they look the way they do. The answer lies in genetics, the branch of biology that deals with heredity and the variation of inherited traits. However, understanding how an organism's genetic code (i.e., genotype) affects its characteristics (i.e., phenotype) is more than a matter of idle curiosity: It's essential for…

  9. Hermeneutic and Cultural Codes of S/Z: A Semiological Reading of James Joyce's "The Boarding House"

    ERIC Educational Resources Information Center

    Booryazadeh, Seyed Ali; Faghfori, Sohila; Shamsi, Habibe

    2014-01-01

    Roland Barthes as a fervent proponent of semiology believes that semiology is a branch of a comprehensive linguistics: it is the study of how language articulates the world. Semiotic codes, the paths of this articulation, accordingly underlie his attention. Barthes in a structural analysis of Balzac's "Sarrasine" in S/Z expounds five…

  10. Professional Development of Officers Study. Volume 4, Development Periods

    DTIC Science & Technology

    1985-02-21

    that cadets and making techniques and the t.se of a common op- candidates are expected to receive as broad- erational language to direct actions and...based, in part, on the branch production 2 Glossary mission of the institution (reinforce through 3 Action Plan branch-specific position coding). 4...the next four years (see Action Plan cept for its scholarship students (about three per- at Appendix 3 for details). cent of ROTC cadets), imposes

  11. Snake mitochondrial genomes: phylogenetic relationships and implications of extended taxon sampling for interpretations of mitogenomic evolution

    PubMed Central

    2010-01-01

    Background Snake mitochondrial genomes are of great interest in understanding mitogenomic evolution because of gene duplications and rearrangements and the fast evolutionary rate of their genes compared to other vertebrates. Mitochondrial gene sequences have also played an important role in attempts to resolve the contentious phylogenetic relationships of especially the early divergences among alethinophidian snakes. Two recent innovative studies found dramatic gene- and branch-specific relative acceleration in snake protein-coding gene evolution, particularly along internal branches leading to Serpentes and Alethinophidia. It has been hypothesized that some of these rate shifts are temporally (and possibly causally) associated with control region duplication and/or major changes in ecology and anatomy. Results The near-complete mitochondrial (mt) genomes of three henophidian snakes were sequenced: Anilius scytale, Rhinophis philippinus, and Charina trivirgata. All three genomes share a duplicated control region and translocated tRNALEU, derived features found in all alethinophidian snakes studied to date. The new sequence data were aligned with mt genome data for 21 other species of snakes and used in phylogenetic analyses. Phylogenetic results agreed with many other studies in recovering several robust clades, including Colubroidea, Caenophidia, and Cylindrophiidae+Uropeltidae. Nodes within Henophidia that have been difficult to resolve robustly in previous analyses remained uncompellingly resolved here. Comparisons of relative rates of evolution of rRNA vs. protein-coding genes were conducted by estimating branch lengths across the tree. Our expanded sampling revealed dramatic acceleration along the branch leading to Typhlopidae, particularly long rRNA terminal branches within Scolecophidia, and that most of the dramatic acceleration in protein-coding gene rate along Serpentes and Alethinophidia branches occurred before Anilius diverged from other alethinophidians. Conclusions Mitochondrial gene sequence data alone may not be able to robustly resolve basal divergences among alethinophidian snakes. Taxon sampling plays an important role in identifying mitogenomic evolutionary events within snakes, and in testing hypotheses explaining their origin. Dramatic rate shifts in mitogenomic evolution occur within Scolecophidia as well as Alethinophidia, thus falsifying the hypothesis that these shifts in snakes are associated exclusively with evolution of a non-burrowing lifestyle, macrostomatan feeding ecology and/or duplication of the control region, both restricted to alethinophidians among living snakes. PMID:20055998

  12. Analysis of adaptive evolution in Lyssavirus genomes reveals pervasive diversifying selection during species diversification.

    PubMed

    Voloch, Carolina M; Capellão, Renata T; Mello, Beatriz; Schrago, Carlos G

    2014-11-19

    Lyssavirus is a diverse genus of viruses that infect a variety of mammalian hosts, typically causing encephalitis. The evolution of this lineage, particularly the rabies virus, has been a focus of research because of the extensive occurrence of cross-species transmission, and the distinctive geographical patterns present throughout the diversification of these viruses. Although numerous studies have examined pattern-related questions concerning Lyssavirus evolution, analyses of the evolutionary processes acting on Lyssavirus diversification are scarce. To clarify the relevance of positive natural selection in Lyssavirus diversification, we conducted a comprehensive scan for episodic diversifying selection across all lineages and codon sites of the five coding regions in lyssavirus genomes. Although the genomes of these viruses are generally conserved, the glycoprotein (G), RNA-dependent RNA polymerase (L) and polymerase (P) genes were frequently targets of adaptive evolution during the diversification of the genus. Adaptive evolution is particularly manifest in the glycoprotein gene, which was inferred to have experienced the highest density of positively selected codon sites along branches. Substitutions in the L gene were found to be associated with the early diversification of phylogroups. A comparison between the number of positively selected sites inferred along the branches of RABV population branches and Lyssavirus intespecies branches suggested that the occurrence of positive selection was similar on the five coding regions of the genome in both groups.

  13. Analysis of Adaptive Evolution in Lyssavirus Genomes Reveals Pervasive Diversifying Selection during Species Diversification

    PubMed Central

    Voloch, Carolina M.; Capellão, Renata T.; Mello, Beatriz; Schrago, Carlos G.

    2014-01-01

    Lyssavirus is a diverse genus of viruses that infect a variety of mammalian hosts, typically causing encephalitis. The evolution of this lineage, particularly the rabies virus, has been a focus of research because of the extensive occurrence of cross-species transmission, and the distinctive geographical patterns present throughout the diversification of these viruses. Although numerous studies have examined pattern-related questions concerning Lyssavirus evolution, analyses of the evolutionary processes acting on Lyssavirus diversification are scarce. To clarify the relevance of positive natural selection in Lyssavirus diversification, we conducted a comprehensive scan for episodic diversifying selection across all lineages and codon sites of the five coding regions in lyssavirus genomes. Although the genomes of these viruses are generally conserved, the glycoprotein (G), RNA-dependent RNA polymerase (L) and polymerase (P) genes were frequently targets of adaptive evolution during the diversification of the genus. Adaptive evolution is particularly manifest in the glycoprotein gene, which was inferred to have experienced the highest density of positively selected codon sites along branches. Substitutions in the L gene were found to be associated with the early diversification of phylogroups. A comparison between the number of positively selected sites inferred along the branches of RABV population branches and Lyssavirus intespecies branches suggested that the occurrence of positive selection was similar on the five coding regions of the genome in both groups. PMID:25415197

  14. Near Field HF Antenna Pattern Measurement Method Using an Antenna Pattern Range

    DTIC Science & Technology

    2015-12-01

    Year 2015 by the Applied Electromagnetics Branch (Code 52250) of the System of Systems (SoS) & Platform Design Division (Code 52200), Space and...Head SoS & Platform Design Division iii EXECUTIVE SUMMARY The Antenna Pattern Range (APR) is an essential measurement facility operated at Space...14 1 INTRODUCTION Accurate characterization of antennas designed to support the warfighter is a critical

  15. Background Perchlorate Source Identification Technical Guidance

    DTIC Science & Technology

    2013-12-01

    Sciences Branch (Code 71752) of the Advanced Systems and Applied Sciences Division (Code 71700), Space and Naval Warfare Systems Center (SSC Pacific), San...Head Advanced Systems & Applied Sciences Division iii EXECUTIVE SUMMARY The objective of this document is to outline the approach, tools, and...Helium HMX Octahydro-1,3,5,7-Tetranitro-1,3,5,7- Tetrazocine IR Installation Restoration IRIS Integrated Risk Information System IR-MS Isotope-Ratio

  16. 24 CFR 3280.805 - Branch circuits required.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... room air conditioner, etc.). There shall be one or more circuits of adequate rating in accordance with...)(5). For central air conditioning, see Article 440 of the National Electrical Code, NFPA No. 70-2005...

  17. ARC-2002-ACD02-0055-04

    NASA Image and Video Library

    2002-03-20

    Sun-Earth Day WEBCAST - NASA TV; Host Paul Mortfield, Astronomer Stanford Solar Center and visiting students from San Francisco Bay Area Schools Documentation Technology Branch Video communications van (code-JIT) David Maurantonio, Paul Langston

  18. Verification of GENE and GYRO with L-mode and I-mode plasmas in Alcator C-Mod

    DOE PAGES

    Mikkelsen, D. R.; Howard, N. T.; White, A. E.; ...

    2018-04-25

    Here, verification comparisons are carried out for L-mode and I-mode plasma conditions in Alcator C-Mod. We compare linear and nonlinear ion-scale calculations by the gyrokinetic codes GENE and GYRO to each other and to the experimental power balance analysis. The two gyrokinetic codes' linear growth rates and real frequencies are in good agreement throughout all the ion temperature gradient mode branches and most of the trapped electron mode branches of the kyρs spectra at r/a = 0.65, 0.7, and 0.8. The shapes of the toroidal mode spectra of heat fluxes in nonlinear simulations are very similar for k yρ smore » ≤ 0.5, but in most cases GENE has a relatively higher heat flux than GYRO at higher mode numbers.« less

  19. Verification of GENE and GYRO with L-mode and I-mode plasmas in Alcator C-Mod

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

    Mikkelsen, D. R.; Howard, N. T.; White, A. E.

    Here, verification comparisons are carried out for L-mode and I-mode plasma conditions in Alcator C-Mod. We compare linear and nonlinear ion-scale calculations by the gyrokinetic codes GENE and GYRO to each other and to the experimental power balance analysis. The two gyrokinetic codes' linear growth rates and real frequencies are in good agreement throughout all the ion temperature gradient mode branches and most of the trapped electron mode branches of the kyρs spectra at r/a = 0.65, 0.7, and 0.8. The shapes of the toroidal mode spectra of heat fluxes in nonlinear simulations are very similar for k yρ smore » ≤ 0.5, but in most cases GENE has a relatively higher heat flux than GYRO at higher mode numbers.« less

  20. The emerging complexity of ubiquitin architecture.

    PubMed

    Ohtake, Fumiaki; Tsuchiya, Hikaru

    2017-02-01

    Ubiquitylation is an essential post-translational modification (PTM) of proteins with diverse cellular functions. Polyubiquitin chains with different topologies have different cellular roles, and are referred to as a 'ubiquitin code'. Recent studies have begun to reveal that more complex ubiquitin architectures function as important signals in several biological pathways. These include PTMs of ubiquitin itself, such as acetylated ubiquitin and phospho-ubiquitin. Moreover, important roles for heterogeneous polyubiquitin chains, such as mixed or branched chains, have been reported, which significantly increase the diversity of the ubiquitin code. In this review, we describe mass spectrometry-based methods to characterize the ubiquitin signal. We also describe recent advances in our understanding of complex ubiquitin architectures, including our own findings concerning ubiquitin acetylation and branching within polyubiquitin chains. © The Authors 2016. Published by Oxford University Press on behalf of the Japanese Biochemical Society. All rights reserved.

  1. Measuring and Specifying Combinatorial Coverage of Test Input Configurations

    PubMed Central

    Kuhn, D. Richard; Kacker, Raghu N.; Lei, Yu

    2015-01-01

    A key issue in testing is how many tests are needed for a required level of coverage or fault detection. Estimates are often based on error rates in initial testing, or on code coverage. For example, tests may be run until a desired level of statement or branch coverage is achieved. Combinatorial methods present an opportunity for a different approach to estimating required test set size, using characteristics of the test set. This paper describes methods for estimating the coverage of, and ability to detect, t-way interaction faults of a test set based on a covering array. We also develop a connection between (static) combinatorial coverage and (dynamic) code coverage, such that if a specific condition is satisfied, 100% branch coverage is assured. Using these results, we propose practical recommendations for using combinatorial coverage in specifying test requirements. PMID:28133442

  2. Inorganic Halogen Oxidizer Research

    DTIC Science & Technology

    1981-04-21

    International Rocketdyne Division 6633 Canoga Avenue Canoga Park, California 91304 RI/R.D8l1-14O A ’N-NUAL REPORT INORGANIC HALOGEN OXIDIZER RESEARCH (I...March 1980 through 8 February 198L) 21 April 1981 "Contract N00014-79-C-0176 . GO. 95067 . , Office of Naval Research I-- Power Branch , ,, Code 473...Office of Naval Research Power Branch 11 I-ar Ccovie 473 ~ UMBER OF PA’E1 Arlington. VA 22217 . 76" 74 AONIYONING AGENCY NAME III Dw~S~ d, I f,. .f

  3. Software Development for a Satellite Signal Analyzer

    DTIC Science & Technology

    1979-12-01

    uses this mode index. BUTLI3(18,6) 1*4 Is an array of button num- bers used by the subroutine KTLSIM to simulate the user pushing bottons by...either the program SATCOM will be executed, or if HOLD was previously pushed, the array BUTLIS is used to sim- ulate the pushing of the bottons on...in branch 1 to the AW /WSC-3 has to be on. Branches 1-3 provide power to the lab benches, rack 0-6, and uninterruptable power to the time code

  4. The Montgomery GI Bill--Selected Reserve Under Chapter 1606 of Title 10, U.S. Code

    ERIC Educational Resources Information Center

    US Department of Veterans Affairs, 2007

    2007-01-01

    The Montgomery GI Bill--Selected Reserve (MGIB--SR, or chapter 1606 of title 10, U.S. Code) is an educational assistance program enacted by Congress to attract high quality men and women into the reserve branch of the Armed Forces. This program is for members of the Selected Reserve of the Army, Navy, Air Force, Marine Corps, and Coast Guard, and…

  5. High rate concatenated coding systems using bandwidth efficient trellis inner codes

    NASA Technical Reports Server (NTRS)

    Deng, Robert H.; Costello, Daniel J., Jr.

    1989-01-01

    High-rate concatenated coding systems with bandwidth-efficient trellis inner codes and Reed-Solomon (RS) outer codes are investigated for application in high-speed satellite communication systems. Two concatenated coding schemes are proposed. In one the inner code is decoded with soft-decision Viterbi decoding, and the outer RS code performs error-correction-only decoding (decoding without side information). In the other, the inner code is decoded with a modified Viterbi algorithm, which produces reliability information along with the decoded output. In this algorithm, path metrics are used to estimate the entire information sequence, whereas branch metrics are used to provide reliability information on the decoded sequence. This information is used to erase unreliable bits in the decoded output. An errors-and-erasures RS decoder is then used for the outer code. The two schemes have been proposed for high-speed data communication on NASA satellite channels. The rates considered are at least double those used in current NASA systems, and the results indicate that high system reliability can still be achieved.

  6. Sun-Earth Day WEBCAST - NASA TV; Host Paul Mortfield, Astronomer Stanford Solar Center and visiting

    NASA Technical Reports Server (NTRS)

    2002-01-01

    Sun-Earth Day WEBCAST - NASA TV; Host Paul Mortfield, Astronomer Stanford Solar Center and visiting students from San Francisco Bay Area Schools Documentation Technology Branch Video communications van (code-JIT)

  7. 77 FR 63924 - Proposed Collection; Comment Request for Form 8824

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-10-17

    ... Code section 1043 from conflict- of-interest sales by certain members of the executive branch of the Federal government. Current Actions: There are no changes being made to the form at this time. Type of...

  8. Radio-nuclide mixture identification using medium energy resolution detectors

    DOEpatents

    Nelson, Karl Einar

    2013-09-17

    According to one embodiment, a method for identifying radio-nuclides includes receiving spectral data, extracting a feature set from the spectral data comparable to a plurality of templates in a template library, and using a branch and bound method to determine a probable template match based on the feature set and templates in the template library. In another embodiment, a device for identifying unknown radio-nuclides includes a processor, a multi-channel analyzer, and a memory operatively coupled to the processor, the memory having computer readable code stored thereon. The computer readable code is configured, when executed by the processor, to receive spectral data, to extract a feature set from the spectral data comparable to a plurality of templates in a template library, and to use a branch and bound method to determine a probable template match based on the feature set and templates in the template library.

  9. Comparing contribution of flexural and planar modes to thermodynamic properties

    NASA Astrophysics Data System (ADS)

    Mann, Sarita; Rani, Pooja; Jindal, V. K.

    2017-05-01

    Graphene, the most studied and explored 2D structure has unusual thermal properties such as negative thermal expansion, high thermal conductivity etc. We have already studied the thermal expansion behavior and various thermodynamic properties of pure graphene like heat capacity, entropy and free energy. The results of thermal expansion and various thermodynamic properties match well with available theoretical studies. For a deeper understanding of these properties, we analyzed the contribution of each phonon branch towards the total value of the individual property. To compute these properties, the dynamical matrix was calculated using VASP code where the density functional perturbation theory (DFPT) is employed under quasi-harmonic approximation in interface with phonopy code. It is noticed that transverse mode has major contribution to negative thermal expansion and all branches have almost same contribution towards the various thermodynamic properties with the contribution of ZA mode being the highest.

  10. Sesquinaries, Magnetics and Atmospheres: Studies of the Terrestrial Moons and Exoplanets

    DTIC Science & Technology

    2016-12-01

    support provided by Red Sky Research, LLC. Computational support was provided by the NASA Ames Mission Design Division (Code RD) for research...Systems Branch (Code SST), NASA Ames Research Center, provided supercomputer access and computational resources for the work in Chapter 5. I owe a...huge debt of gratitude to Dr. Pete Worden, Dr. Steve Zornetzer, Dr. Alan Weston ( NASA ), and Col. Carol Welsch, Lt. Col Joe Nance and Lt. Col Brian

  11. Branch: an interactive, web-based tool for testing hypotheses and developing predictive models.

    PubMed

    Gangavarapu, Karthik; Babji, Vyshakh; Meißner, Tobias; Su, Andrew I; Good, Benjamin M

    2016-07-01

    Branch is a web application that provides users with the ability to interact directly with large biomedical datasets. The interaction is mediated through a collaborative graphical user interface for building and evaluating decision trees. These trees can be used to compose and test sophisticated hypotheses and to develop predictive models. Decision trees are built and evaluated based on a library of imported datasets and can be stored in a collective area for sharing and re-use. Branch is hosted at http://biobranch.org/ and the open source code is available at http://bitbucket.org/sulab/biobranch/ asu@scripps.edu or bgood@scripps.edu Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press.

  12. Real-time minimal-bit-error probability decoding of convolutional codes

    NASA Technical Reports Server (NTRS)

    Lee, L.-N.

    1974-01-01

    A recursive procedure is derived for decoding of rate R = 1/n binary convolutional codes which minimizes the probability of the individual decoding decisions for each information bit, subject to the constraint that the decoding delay be limited to Delta branches. This new decoding algorithm is similar to, but somewhat more complex than, the Viterbi decoding algorithm. A real-time, i.e., fixed decoding delay, version of the Viterbi algorithm is also developed and used for comparison to the new algorithm on simulated channels. It is shown that the new algorithm offers advantages over Viterbi decoding in soft-decision applications, such as in the inner coding system for concatenated coding.

  13. Real-time minimal bit error probability decoding of convolutional codes

    NASA Technical Reports Server (NTRS)

    Lee, L. N.

    1973-01-01

    A recursive procedure is derived for decoding of rate R=1/n binary convolutional codes which minimizes the probability of the individual decoding decisions for each information bit subject to the constraint that the decoding delay be limited to Delta branches. This new decoding algorithm is similar to, but somewhat more complex than, the Viterbi decoding algorithm. A real-time, i.e. fixed decoding delay, version of the Viterbi algorithm is also developed and used for comparison to the new algorithm on simulated channels. It is shown that the new algorithm offers advantages over Viterbi decoding in soft-decision applications such as in the inner coding system for concatenated coding.

  14. Finite-block-length analysis in classical and quantum information theory.

    PubMed

    Hayashi, Masahito

    2017-01-01

    Coding technology is used in several information processing tasks. In particular, when noise during transmission disturbs communications, coding technology is employed to protect the information. However, there are two types of coding technology: coding in classical information theory and coding in quantum information theory. Although the physical media used to transmit information ultimately obey quantum mechanics, we need to choose the type of coding depending on the kind of information device, classical or quantum, that is being used. In both branches of information theory, there are many elegant theoretical results under the ideal assumption that an infinitely large system is available. In a realistic situation, we need to account for finite size effects. The present paper reviews finite size effects in classical and quantum information theory with respect to various topics, including applied aspects.

  15. Finite-block-length analysis in classical and quantum information theory

    PubMed Central

    HAYASHI, Masahito

    2017-01-01

    Coding technology is used in several information processing tasks. In particular, when noise during transmission disturbs communications, coding technology is employed to protect the information. However, there are two types of coding technology: coding in classical information theory and coding in quantum information theory. Although the physical media used to transmit information ultimately obey quantum mechanics, we need to choose the type of coding depending on the kind of information device, classical or quantum, that is being used. In both branches of information theory, there are many elegant theoretical results under the ideal assumption that an infinitely large system is available. In a realistic situation, we need to account for finite size effects. The present paper reviews finite size effects in classical and quantum information theory with respect to various topics, including applied aspects. PMID:28302962

  16. Mass loss during the RR Lyrae phase of the horizontal branch: Mass dispersion on the horizontal branch and RR Lyrae period changes

    NASA Technical Reports Server (NTRS)

    Koopmann, Rebecca A.; Lee, Young-Wook; Demarque, Pierre; Howard, Jamie M.

    1994-01-01

    Mass loss on the horizontal branch has been invoked in the literature to explain such phenomena as the color (mass) dispersion of the horizontal branch and the observed distribution of period changes in RR Lyrae stars. To test these claims, the Yale stellar evolution code was used to evolve horizontal branch models of masses 0.64, 0.66, 0.68, 0.70, and 0.72 solar mass with Z of 0.001, core mass of 0.4893, main-sequence helium abundance of 0.23, and constant mass loss rates of 0, 10(exp -10), 5 x 10(exp -10), and 10(exp -9) solar mass/yr. Mass loss was assumed to occur only in the instability strip, where a mechanism is most likely to exist. Synthetic horizontal branches, constructed from the models, show that mass loss on the horizontal branch cannot produce the observed color dispersion even for the highest mass-loss rate of 10(exp -9) solar mass/yr. Mass loss is unlikely to occur at a higher rate without significant effects on the horizontal branch morphology, which would destroy the good agreement between standard synthetic models without mass loss and observed horizontal branches. Periods and period changes were calculated for all models. The period changes are not significantly larger for models with mass loss. The effect of mass loss in clusters of other metallicities is discussed.

  17. Study characterizes long non-coding RNA’s response to DNA damage in colon cancer cells | Center for Cancer Research

    Cancer.gov

    Researchers led by Ashish Lal, Ph.D., Investigator in the Genetics Branch, have shown that when the DNA in human colon cancer cells is damaged, a long non-coding RNA (lncRNA) regulates the expression of genes that halt growth, which allows the cells to repair the damage and promote survival. Their findings suggest an important pro-survival function of a lncRNA in cancer

  18. On decoding of multi-level MPSK modulation codes

    NASA Technical Reports Server (NTRS)

    Lin, Shu; Gupta, Alok Kumar

    1990-01-01

    The decoding problem of multi-level block modulation codes is investigated. The hardware design of soft-decision Viterbi decoder for some short length 8-PSK block modulation codes is presented. An effective way to reduce the hardware complexity of the decoder by reducing the branch metric and path metric, using a non-uniform floating-point to integer mapping scheme, is proposed and discussed. The simulation results of the design are presented. The multi-stage decoding (MSD) of multi-level modulation codes is also investigated. The cases of soft-decision and hard-decision MSD are considered and their performance are evaluated for several codes of different lengths and different minimum squared Euclidean distances. It is shown that the soft-decision MSD reduces the decoding complexity drastically and it is suboptimum. The hard-decision MSD further simplifies the decoding while still maintaining a reasonable coding gain over the uncoded system, if the component codes are chosen properly. Finally, some basic 3-level 8-PSK modulation codes using BCH codes as component codes are constructed and their coding gains are found for hard decision multistage decoding.

  19. Turbo Trellis Coded Modulation With Iterative Decoding for Mobile Satellite Communications

    NASA Technical Reports Server (NTRS)

    Divsalar, D.; Pollara, F.

    1997-01-01

    In this paper, analytical bounds on the performance of parallel concatenation of two codes, known as turbo codes, and serial concatenation of two codes over fading channels are obtained. Based on this analysis, design criteria for the selection of component trellis codes for MPSK modulation, and a suitable bit-by-bit iterative decoding structure are proposed. Examples are given for throughput of 2 bits/sec/Hz with 8PSK modulation. The parallel concatenation example uses two rate 4/5 8-state convolutional codes with two interleavers. The convolutional codes' outputs are then mapped to two 8PSK modulations. The serial concatenated code example uses an 8-state outer code with rate 4/5 and a 4-state inner trellis code with 5 inputs and 2 x 8PSK outputs per trellis branch. Based on the above mentioned design criteria for fading channels, a method to obtain he structure of the trellis code with maximum diversity is proposed. Simulation results are given for AWGN and an independent Rayleigh fading channel with perfect Channel State Information (CSI).

  20. NRL Fact Book

    DTIC Science & Technology

    1997-07-01

    Schaefer Deputy for Small Business 3204 EXECUTIVE COUNCIL CHIEF STAFF OFFICER 1002 FLIGHT SUPPORT DETACHMENT 1600 COMMAND SUPPORT DIVISION 1200...Belew, USN, Code 1640, (301) 342- 4926 ; DSN 342- 4926 CDR D.R. DOWELL, USN FLIGHT SUPPORT DETACHMENT OFFICER-IN-CHARGE 1600 1630 OPERATIONS BRANCH

  1. An Olive Branch for Boards.

    ERIC Educational Resources Information Center

    Harrington-Lueker, Donna

    1993-01-01

    Peacekeeping strategies for school-board meetings include developing a code of conduct that spells out guidelines for behavior and then enforcing it; bringing in a neutral observer to help board members work through what is really worrying them; and concentrating on policy. (MLF)

  2. 77 FR 64435 - Branch Technical Position on the Import of Non-U.S. Origin Radioactive Sources

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-10-22

    ... exclusion, initially adopted in a 1995 rule.\\3\\ In accordance with International Atomic Energy Agency (IAEA) Code of Conduct on the Safety and Security of Radioactive Sources and the IAEA supplemental Guidance on...

  3. PyPWA: A partial-wave/amplitude analysis software framework

    NASA Astrophysics Data System (ADS)

    Salgado, Carlos

    2016-05-01

    The PyPWA project aims to develop a software framework for Partial Wave and Amplitude Analysis of data; providing the user with software tools to identify resonances from multi-particle final states in photoproduction. Most of the code is written in Python. The software is divided into two main branches: one general-shell where amplitude's parameters (or any parametric model) are to be estimated from the data. This branch also includes software to produce simulated data-sets using the fitted amplitudes. A second branch contains a specific realization of the isobar model (with room to include Deck-type and other isobar model extensions) to perform PWA with an interface into the computer resources at Jefferson Lab. We are currently implementing parallelism and vectorization using the Intel's Xeon Phi family of coprocessors.

  4. Distinct 3-O-Sulfated Heparan Sulfate Modification Patterns Are Required for kal-1−Dependent Neurite Branching in a Context-Dependent Manner in Caenorhabditis elegans

    PubMed Central

    Tecle, Eillen; Diaz-Balzac, Carlos A.; Bülow, Hannes E.

    2013-01-01

    Heparan sulfate (HS) is an unbranched glycosaminoglycan exhibiting substantial molecular diversity due to multiple, nonuniformly introduced modifications, including sulfations, epimerization, and acetylation. HS modifications serve specific and instructive roles in neuronal development, leading to the hypothesis of a HS code that regulates nervous system patterning. Although the in vivo roles of many of the HS modifications have been investigated, very little is known about the function of HS 3-O-sulfation in vivo. By examining patterning of the Caenorhabditis elegans nervous system in loss of function mutants of the two 3-O-sulfotransferases, hst-3.1 and hst-3.2, we found HS 3-O-sulfation to be largely dispensable for overall neural development. However, generation of stereotypical neurite branches in hermaphroditic-specific neurons required hst-3.1, hst-3.2, as well as an extracellular cell adhesion molecule encoded by kal-1, the homolog of Kallmann Syndrome associated gene 1/anosmin-1. In contrast, kal-1−dependent neurite branching in AIY neurons required catalytic activity of hst-3.2 but not hst-3.1. The context-dependent requirement for hst-3.2 and hst-3.1 indicates that both enzymes generate distinct types of HS modification patterns in different cell types, which regulate kal-1 to promote neurite branching. We conclude that HS 3-O-sulfation does not play a general role in establishing the HS code in C. elegans but rather plays a specialized role in a context-dependent manner to establish defined aspects of neuronal circuits. PMID:23451335

  5. Center for Parallel Optimization

    DTIC Science & Technology

    1993-09-30

    BOLLING AFB DC 20332-0001 _ii _ 11. SUPPLEMENTARY NOTES 12a. DISTRIBUTION/ AVAILABILITY STATEMENT 12b. DISTRIBUTION CODE APPROVED FOR PUBLIC RELEASE...Machines Corporation, March 16-19, 1993 , A Branch- and-Bound Method for Mixed Integer Programming on the CM-.5 "* Dr. Roberto Musmanno, University of

  6. Metal Matrix Laminate Tailoring (MMLT) code: User's manual

    NASA Technical Reports Server (NTRS)

    Murthy, P. L. N.; Morel, M. R.; Saravanos, D. A.

    1993-01-01

    The User's Manual for the Metal Matrix Laminate Tailoring (MMLT) program is presented. The code is capable of tailoring the fabrication process, constituent characteristics, and laminate parameters (individually or concurrently) for a wide variety of metal matrix composite (MMC) materials, to improve the performance and identify trends or behavior of MMC's under different thermo-mechanical loading conditions. This document is meant to serve as a guide in the use of the MMLT code. Detailed explanations of the composite mechanics and tailoring analysis are beyond the scope of this document, and may be found in the references. MMLT was developed by the Structural Mechanics Branch at NASA Lewis Research Center (LeRC).

  7. PEBL: A Code for Penetrating and Blunt Trauma, Based on the H-ICDA index

    DTIC Science & Technology

    1978-10-01

    separation 0 no separation g =I sacroiliac joint separation 0 no separation The injury is encoded as follows 808,1230000110. The root code 808. of the PEBL...acetabulum c = I lschium 0 not ischlum d w I ilium 0 not ilium e - I sacrum 0 not sacrum f I pubic separation 0 no separation g = I sacroiliac Joint ...numbers of combat casualties. Development of methodologies for making these estimates was requested of the Biophysics Branch by the Joint Technical

  8. Seepage and Piping through Levees and Dikes using 2D and 3D Modeling Codes

    DTIC Science & Technology

    2016-06-01

    by the Hydrologic Systems Branch of the Flood and Storm Protection Division (CEERD-HF), U.S. Army Engineer Research and Development Center, Coastal ...ER D C/ CH L TR -1 6- 6 Flood & Coastal Storm Damage Reduction Program Seepage and Piping through Levees and Dikes Using 2D and 3D...Flood & Coastal Storm Damage Reduction Program ERDC/CHL TR-16-6 June 2016 Seepage and Piping through Levees and Dikes Using 2D and 3D Modeling Codes

  9. Study characterizes long non-coding RNA’s response to DNA damage in colon cancer cells | Center for Cancer Research

    Cancer.gov

    Researchers led by Ashish Lal, Ph.D., Investigator in the Genetics Branch, have shown that when the DNA in human colon cancer cells is damaged, a long non-coding RNA (lncRNA) regulates the expression of genes that halt growth, which allows the cells to repair the damage and promote survival. Their findings suggest an important pro-survival function of a lncRNA in cancer cells.  Read more...

  10. Second-generation sequencing of entire mitochondrial coding-regions (∼15.4 kb) holds promise for study of the phylogeny and taxonomy of human body lice and head lice.

    PubMed

    Xiong, H; Campelo, D; Pollack, R J; Raoult, D; Shao, R; Alem, M; Ali, J; Bilcha, K; Barker, S C

    2014-08-01

    The Illumina Hiseq platform was used to sequence the entire mitochondrial coding-regions of 20 body lice, Pediculus humanus Linnaeus, and head lice, P. capitis De Geer (Phthiraptera: Pediculidae), from eight towns and cities in five countries: Ethiopia, France, China, Australia and the U.S.A. These data (∼310 kb) were used to see how much more informative entire mitochondrial coding-region sequences were than partial mitochondrial coding-region sequences, and thus to guide the design of future studies of the phylogeny, origin, evolution and taxonomy of body lice and head lice. Phylogenies were compared from entire coding-region sequences (∼15.4 kb), entire cox1 (∼1.5 kb), partial cox1 (∼700 bp) and partial cytb (∼600 bp) sequences. On the one hand, phylogenies from entire mitochondrial coding-region sequences (∼15.4 kb) were much more informative than phylogenies from entire cox1 sequences (∼1.5 kb) and partial gene sequences (∼600 to ∼700 bp). For example, 19 branches had > 95% bootstrap support in our maximum likelihood tree from the entire mitochondrial coding-regions (∼15.4 kb) whereas the tree from 700 bp cox1 had only two branches with bootstrap support > 95%. Yet, by contrast, partial cytb (∼600 bp) and partial cox1 (∼486 bp) sequences were sufficient to genotype lice to Clade A, B or C. The sequences of the mitochondrial genomes of the P. humanus, P. capitis and P. schaeffi Fahrenholz studied are in NCBI GenBank under the accession numbers KC660761-800, KC685631-6330, KC241882-97, EU219988-95, HM241895-8 and JX080388-407. © 2014 The Royal Entomological Society.

  11. Lightning Protection Guidelines for Aerospace Vehicles

    NASA Technical Reports Server (NTRS)

    Goodloe, C. C.

    1999-01-01

    This technical memorandum provides lightning protection engineering guidelines and technical procedures used by the George C. Marshall Space Flight Center (MSFC) Electromagnetics and Aerospace Environments Branch for aerospace vehicles. The overviews illustrate the technical support available to project managers, chief engineers, and design engineers to ensure that aerospace vehicles managed by MSFC are adequately protected from direct and indirect effects of lightning. Generic descriptions of the lightning environment and vehicle protection technical processes are presented. More specific aerospace vehicle requirements for lightning protection design, performance, and interface characteristics are available upon request to the MSFC Electromagnetics and Aerospace Environments Branch, mail code EL23.

  12. Visibility Data Filters for Europe

    DTIC Science & Technology

    1990-04-14

    Manager Atmospheric Optics Branch FOR THE COMMANDER (Signature) R. Earl Good, Director Optical and Infrared Techn logy Division This report has been...recorded under code WW1, WW2 , etc. Unfortunately for most of the European stations contained in the DATSAV database, the precipitation flags are missing

  13. 77 FR 2924 - Notice of Public Meeting and Request for Comment on the Branch Technical Position on the Import...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-01-20

    ... exclusion, initially adopted in a 1995 rule.\\3\\ In accordance with International Atomic Energy Agency (IAEA) Code of Conduct on the Safety and Security of Radioactive Sources and the IAEA supplemental Guidance on...

  14. Parallel evolution of the glycogen synthase 1 (muscle) gene Gys1 between Old World and New World fruit bats (Order: Chiroptera).

    PubMed

    Fang, Lu; Shen, Bin; Irwin, David M; Zhang, Shuyi

    2014-10-01

    Glycogen synthase, which catalyzes the synthesis of glycogen, is especially important for Old World (Pteropodidae) and New World (Phyllostomidae) fruit bats that ingest high-carbohydrate diets. Glycogen synthase 1, encoded by the Gys1 gene, is the glycogen synthase isozyme that functions in muscles. To determine whether Gys1 has undergone adaptive evolution in bats with carbohydrate-rich diets, in comparison to insect-eating sister bat taxa, we sequenced the coding region of the Gys1 gene from 10 species of bats, including two Old World fruit bats (Pteropodidae) and a New World fruit bat (Phyllostomidae). Our results show no evidence for positive selection in the Gys1 coding sequence on the ancestral Old World and the New World Artibeus lituratus branches. Tests for convergent evolution indicated convergence of the sequences and one parallel amino acid substitution (T395A) was detected on these branches, which was likely driven by natural selection.

  15. Reengineering legacy software to object-oriented systems

    NASA Technical Reports Server (NTRS)

    Pitman, C.; Braley, D.; Fridge, E.; Plumb, A.; Izygon, M.; Mears, B.

    1994-01-01

    NASA has a legacy of complex software systems that are becoming increasingly expensive to maintain. Reengineering is one approach to modemizing these systems. Object-oriented technology, other modem software engineering principles, and automated tools can be used to reengineer the systems and will help to keep maintenance costs of the modemized systems down. The Software Technology Branch at the NASA/Johnson Space Center has been developing and testing reengineering methods and tools for several years. The Software Technology Branch is currently providing training and consulting support to several large reengineering projects at JSC, including the Reusable Objects Software Environment (ROSE) project, which is reengineering the flight analysis and design system (over 2 million lines of FORTRAN code) into object-oriented C++. Many important lessons have been learned during the past years; one of these is that the design must never be allowed to diverge from the code during maintenance and enhancement. Future work on open, integrated environments to support reengineering is being actively planned.

  16. Expression-Linked Patterns of Codon Usage, Amino Acid Frequency, and Protein Length in the Basally Branching Arthropod Parasteatoda tepidariorum

    PubMed Central

    Whittle, Carrie A.; Extavour, Cassandra G.

    2016-01-01

    Abstract Spiders belong to the Chelicerata, the most basally branching arthropod subphylum. The common house spider, Parasteatoda tepidariorum, is an emerging model and provides a valuable system to address key questions in molecular evolution in an arthropod system that is distinct from traditionally studied insects. Here, we provide evidence suggesting that codon usage, amino acid frequency, and protein lengths are each influenced by expression-mediated selection in P. tepidariorum. First, highly expressed genes exhibited preferential usage of T3 codons in this spider, suggestive of selection. Second, genes with elevated transcription favored amino acids with low or intermediate size/complexity (S/C) scores (glycine and alanine) and disfavored those with large S/C scores (such as cysteine), consistent with the minimization of biosynthesis costs of abundant proteins. Third, we observed a negative correlation between expression level and coding sequence length. Together, we conclude that protein-coding genes exhibit signals of expression-related selection in this emerging, noninsect, arthropod model. PMID:27017527

  17. Fracture Property of Y-Shaped Cracks of Brittle Materials under Compression

    PubMed Central

    Zhang, Xiaoyan; Zhu, Zheming; Liu, Hongjie

    2014-01-01

    In order to investigate the properties of Y-shaped cracks of brittle materials under compression, compression tests by using square cement mortar specimens with Y-shaped crack were conducted. A true triaxial loading device was applied in the tests, and the major principle stresses or the critical stresses were measured. The results show that as the branch angle θ between the branch crack and the stem crack is 75°, the cracked specimen has the lowest strength. In order to explain the test results, numerical models of Y-shaped cracks by using ABAQUS code were established, and the J-integral method was applied in calculating crack tip stress intensity factor (SIF). The results show that when the branch angle θ increases, the SIF K I of the branch crack increases from negative to positive and the absolute value K II of the branch crack first increases, and as θ is 50°, it is the maximum, and then it decreases. Finally, in order to further investigate the stress distribution around Y-shaped cracks, photoelastic tests were conducted, and the test results generally agree with the compressive test results. PMID:25013846

  18. Pervasive positive selection on duplicated and nonduplicated vertebrate protein coding genes.

    PubMed

    Studer, Romain A; Penel, Simon; Duret, Laurent; Robinson-Rechavi, Marc

    2008-09-01

    A stringent branch-site codon model was used to detect positive selection in vertebrate evolution. We show that the test is robust to the large evolutionary distances involved. Positive selection was detected in 77% of 884 genes studied. Most positive selection concerns a few sites on a single branch of the phylogenetic tree: Between 0.9% and 4.7% of sites are affected by positive selection depending on the branches. No functional category was overrepresented among genes under positive selection. Surprisingly, whole genome duplication had no effect on the prevalence of positive selection, whether the fish-specific genome duplication or the two rounds at the origin of vertebrates. Thus positive selection has not been limited to a few gene classes, or to specific evolutionary events such as duplication, but has been pervasive during vertebrate evolution.

  19. National Centers for Environmental Prediction

    Science.gov Websites

    Organization Search Enter text Search Navigation Bar End Cap Search EMC Go Branches Global Climate and Weather Modeling Mesoscale Modeling Marine Modeling and Analysis Teams Climate Data Assimilation Ensembles and Post Model Configuration Collaborators Documentation and Code FAQ Operational Change Log Parallel Experiment

  20. Modeling and Simulation with INS.

    ERIC Educational Resources Information Center

    Roberts, Stephen D.; And Others

    INS, the Integrated Network Simulation language, puts simulation modeling into a network framework and automatically performs such programming activities as placing the problem into a next event structure, coding events, collecting statistics, monitoring status, and formatting reports. To do this, INS provides a set of symbols (nodes and branches)…

  1. Software Development Processes Applied to Computational Icing Simulation

    NASA Technical Reports Server (NTRS)

    Levinson, Laurie H.; Potapezuk, Mark G.; Mellor, Pamela A.

    1999-01-01

    The development of computational icing simulation methods is making the transition form the research to common place use in design and certification efforts. As such, standards of code management, design validation, and documentation must be adjusted to accommodate the increased expectations of the user community with respect to accuracy, reliability, capability, and usability. This paper discusses these concepts with regard to current and future icing simulation code development efforts as implemented by the Icing Branch of the NASA Lewis Research Center in collaboration with the NASA Lewis Engineering Design and Analysis Division. With the application of the techniques outlined in this paper, the LEWICE ice accretion code has become a more stable and reliable software product.

  2. National Centers for Environmental Prediction

    Science.gov Websites

    Organization Search Enter text Search Navigation Bar End Cap Search EMC Go Branches Global Climate and Weather Modeling Mesoscale Modeling Marine Modeling and Analysis Teams Climate Data Assimilation Ensembles and Post Configuration Collaborators Documentation and Code FAQ Operational Change Log Parallel Experiment Change Log

  3. National Centers for Environmental Prediction

    Science.gov Websites

    Organization Search Enter text Search Navigation Bar End Cap Search EMC Go Branches Global Climate and Weather Modeling Mesoscale Modeling Marine Modeling and Analysis Teams Climate Data Assimilation Ensembles and Post Collaborators Documentation and Code FAQ Operational Change Log Parallel Experiment Change Log Contacts

  4. An arbitrary grid CFD algorithm for configuration aerodynamics analysis. Volume 1: Theory and validations

    NASA Technical Reports Server (NTRS)

    Baker, A. J.; Iannelli, G. S.; Manhardt, Paul D.; Orzechowski, J. A.

    1993-01-01

    This report documents the user input and output data requirements for the FEMNAS finite element Navier-Stokes code for real-gas simulations of external aerodynamics flowfields. This code was developed for the configuration aerodynamics branch of NASA ARC, under SBIR Phase 2 contract NAS2-124568 by Computational Mechanics Corporation (COMCO). This report is in two volumes. Volume 1 contains the theory for the derived finite element algorithm and describes the test cases used to validate the computer program described in the Volume 2 user guide.

  5. GFSSP Training Course Lectures

    NASA Technical Reports Server (NTRS)

    Majumdar, Alok K.

    2008-01-01

    GFSSP has been extended to model conjugate heat transfer Fluid Solid Network Elements include: a) Fluid nodes and Flow Branches; b) Solid Nodes and Ambient Nodes; c) Conductors connecting Fluid-Solid, Solid-Solid and Solid-Ambient Nodes. Heat Conduction Equations are solved simultaneously with Fluid Conservation Equations for Mass, Momentum, Energy and Equation of State. The extended code was verified by comparing with analytical solution for simple conduction-convection problem The code was applied to model: a) Pressurization of Cryogenic Tank; b) Freezing and Thawing of Metal; c) Chilldown of Cryogenic Transfer Line; d) Boil-off from Cryogenic Tank.

  6. An arbitrary grid CFD algorithm for configuration aerodynamics analysis. Volume 2: FEMNAS user guide

    NASA Technical Reports Server (NTRS)

    Manhardt, Paul D.; Orzechowski, J. A.; Baker, A. J.

    1992-01-01

    This report documents the user input and output data requirements for the FEMNAS finite element Navier-Stokes code for real-gas simulations of external aerodynamics flowfields. This code was developed for the configuration aerodynamics branch of NASA ARC, under SBIR Phase 2 contract NAS2-124568 by Computational Mechanics Corporation (COMCO). This report is in two volumes. Volume 1 contains the theory for the derived finite element algorithm and describes the test cases used to validate the computer program described in the Volume 2 user guide.

  7. 3D PIC-MCC simulations of positive streamers in air gaps

    NASA Astrophysics Data System (ADS)

    Jiang, M.; Li, Y.; Wang, H.; Liu, C.

    2017-10-01

    Simulation of positive streamer evolution is important for understanding the microscopic physical process in discharges. Simulations described in this paper are done using a 3D Particle-In-Cell, Monte-Carlo-Collision code with photoionization. Three phases of a positive streamer evolution, identified as initiation, propagation, and branching are studied during simulations. A homogeneous electric field is applied between parallel-flat electrodes forming a millimeter air gap to make simulations and analysis more simple and general. Free electrons created by the photoionization process determine initiation, propagation, and branching of the streamers. Electron avalanches form a positive streamer tip, when the space charge of ions at the positive tip dominates the local electric field. The propagation of the positive tip toward a cathode is the result of combinations of the positive tip and secondary avalanches ahead of it. A curved feather-like channel is formed without obvious branches when the electric field between electrodes is 50 kV/cm. However, a channel is formed with obvious branches when the electric field increases up to 60 kV/cm. In contrast to the branches around a sharp needle electrode, branches near the flat anode are formed at a certain distance away from it. Simulated parameters of the streamer such as diameter, maximum electric field, propagation velocity, and electron density at the streamer tip are in a good agreement with those published earlier.

  8. Error control techniques for satellite and space communications

    NASA Technical Reports Server (NTRS)

    Costello, D. J., Jr.

    1986-01-01

    High rate concatenated coding systems with trellis inner codes and Reed-Solomon (RS) outer codes for application in satellite communication systems are considered. Two types of inner codes are studied: high rate punctured binary convolutional codes which result in overall effective information rates between 1/2 and 1 bit per channel use; and bandwidth efficient signal space trellis codes which can achieve overall effective information rates greater than 1 bit per channel use. Channel capacity calculations with and without side information performed for the concatenated coding system. Concatenated coding schemes are investigated. In Scheme 1, the inner code is decoded with the Viterbi algorithm and the outer RS code performs error-correction only (decoding without side information). In scheme 2, the inner code is decoded with a modified Viterbi algorithm which produces reliability information along with the decoded output. In this algorithm, path metrics are used to estimate the entire information sequence, while branch metrics are used to provide the reliability information on the decoded sequence. This information is used to erase unreliable bits in the decoded output. An errors-and-erasures RS decoder is then used for the outer code. These two schemes are proposed for use on NASA satellite channels. Results indicate that high system reliability can be achieved with little or no bandwidth expansion.

  9. Regional 3D Numerical Modeling of the Lithosphere-Mantle System: Implications for Continental Rift-Parallel Surface Velocities

    NASA Astrophysics Data System (ADS)

    Stamps, S.; Bangerth, W.; Hager, B. H.

    2014-12-01

    The East African Rift System (EARS) is an active divergent plate boundary with slow, approximately E-W extension rates ranging from <1-6 mm/yr. Previous work using thin-sheet modeling indicates lithospheric buoyancy dominates the force balance driving large-scale Nubia-Somalia divergence, however GPS observations within the Western Branch of the EARS show along-rift motions that contradict this simple model. Here, we test the role of mantle flow at the rift-scale using our new, regional 3D numerical model based on the open-source code ASPECT. We define a thermal lithosphere with thicknesses that are systematically changed for generic models or based on geophysical constraints in the Western branch (e.g. melting depths, xenoliths, seismic tomography). Preliminary results suggest existing variations in lithospheric thicknesses along-rift in the Western Branch can drive upper mantle flow that is consistent with geodetic observations.

  10. On the error probability of general tree and trellis codes with applications to sequential decoding

    NASA Technical Reports Server (NTRS)

    Johannesson, R.

    1973-01-01

    An upper bound on the average error probability for maximum-likelihood decoding of the ensemble of random binary tree codes is derived and shown to be independent of the length of the tree. An upper bound on the average error probability for maximum-likelihood decoding of the ensemble of random L-branch binary trellis codes of rate R = 1/n is derived which separates the effects of the tail length T and the memory length M of the code. It is shown that the bound is independent of the length L of the information sequence. This implication is investigated by computer simulations of sequential decoding utilizing the stack algorithm. These simulations confirm the implication and further suggest an empirical formula for the true undetected decoding error probability with sequential decoding.

  11. Braiding by Majorana tracking and long-range CNOT gates with color codes

    NASA Astrophysics Data System (ADS)

    Litinski, Daniel; von Oppen, Felix

    2017-11-01

    Color-code quantum computation seamlessly combines Majorana-based hardware with topological error correction. Specifically, as Clifford gates are transversal in two-dimensional color codes, they enable the use of the Majoranas' non-Abelian statistics for gate operations at the code level. Here, we discuss the implementation of color codes in arrays of Majorana nanowires that avoid branched networks such as T junctions, thereby simplifying their realization. We show that, in such implementations, non-Abelian statistics can be exploited without ever performing physical braiding operations. Physical braiding operations are replaced by Majorana tracking, an entirely software-based protocol which appropriately updates the Majoranas involved in the color-code stabilizer measurements. This approach minimizes the required hardware operations for single-qubit Clifford gates. For Clifford completeness, we combine color codes with surface codes, and use color-to-surface-code lattice surgery for long-range multitarget CNOT gates which have a time overhead that grows only logarithmically with the physical distance separating control and target qubits. With the addition of magic state distillation, our architecture describes a fault-tolerant universal quantum computer in systems such as networks of tetrons, hexons, or Majorana box qubits, but can also be applied to nontopological qubit platforms.

  12. Validation of NASA Thermal Ice Protection Computer Codes. Part 3; The Validation of Antice

    NASA Technical Reports Server (NTRS)

    Al-Khalil, Kamel M.; Horvath, Charles; Miller, Dean R.; Wright, William B.

    2001-01-01

    An experimental program was generated by the Icing Technology Branch at NASA Glenn Research Center to validate two ice protection simulation codes: (1) LEWICE/Thermal for transient electrothermal de-icing and anti-icing simulations, and (2) ANTICE for steady state hot gas and electrothermal anti-icing simulations. An electrothermal ice protection system was designed and constructed integral to a 36 inch chord NACA0012 airfoil. The model was fully instrumented with thermo-couples, RTD'S, and heat flux gages. Tests were conducted at several icing environmental conditions during a two week period at the NASA Glenn Icing Research Tunnel. Experimental results of running-wet and evaporative cases were compared to the ANTICE computer code predictions and are presented in this paper.

  13. Force field development with GOMC, a fast new Monte Carlo molecular simulation code

    NASA Astrophysics Data System (ADS)

    Mick, Jason Richard

    In this work GOMC (GPU Optimized Monte Carlo) a new fast, flexible, and free molecular Monte Carlo code for the simulation atomistic chemical systems is presented. The results of a large Lennard-Jonesium simulation in the Gibbs ensemble is presented. Force fields developed using the code are also presented. To fit the models a quantitative fitting process is outlined using a scoring function and heat maps. The presented n-6 force fields include force fields for noble gases and branched alkanes. These force fields are shown to be the most accurate LJ or n-6 force fields to date for these compounds, capable of reproducing pure fluid behavior and binary mixture behavior to a high degree of accuracy.

  14. Industrial Electricity. In-Plant Distribution. Vocational Trade and Industrial Education.

    ERIC Educational Resources Information Center

    Teague, Cash; Pewewardy, Garner

    This curriculum guide, part of a series of industrial electricity curriculum guides, consists of materials for use in teaching a course on the in-plant distribution of electricity. Discussed in the introductory lessons are the National Electrical Code, power equipment, and blueprint reading. The next section, a series of units on branch-circuit…

  15. 75 FR 37881 - Surety Companies Acceptable on Federal Bonds-Change in State of Incorporation United States...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-06-30

    ..., Financial Management Service, Financial Accounting and Services Division, Surety Bond Branch, 3700 East-West..., Financial Accounting and Services Division. [FR Doc. 2010-15614 Filed 6-29-10; 8:45 am] BILLING CODE 4810-35... State of Incorporation United States Fidelity and Guaranty Company AGENCY: Financial Management Service...

  16. 75 FR 51978 - United States Standards for Grades of Pineapple Juice

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-08-24

    ...: Effective Date: August 24, 2010. FOR FURTHER INFORMATION CONTACT: Lydia E. Berry, Processed Products Branch... Juice are located on the Internet at: http://www.regulations.go v or http://www.ams.usda.gov... in part 36, title 7 of the Code of Federal Regulations (7 CFR part 36). These corrections restore the...

  17. 21 CFR 177.2400 - Perfluorocarbon cured elastomers.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... (channel process of furnace combustion process) (CAS Reg. No. 1333-86-4) Not to exceed 15 parts per 100... Administration, 5100 Paint Branch Pkwy., College Park, MD 20740, or available for inspection at the National..., call 202-741-6030, or go to: http://www.archives.gov/federal_register/code_of_federal_regulations/ibr...

  18. 21 CFR 177.2400 - Perfluorocarbon cured elastomers.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... (channel process of furnace combustion process) (CAS Reg. No. 1333-86-4) Not to exceed 15 parts per 100... Administration, 5100 Paint Branch Pkwy., College Park, MD 20740, or available for inspection at the National..., call 202-741-6030, or go to: http://www.archives.gov/federal_register/code_of_federal_regulations/ibr...

  19. Cracking Codes & Launching Rockets

    ERIC Educational Resources Information Center

    Paoletti, Teo J.

    2013-01-01

    To engage students, many teachers wish to connect the mathematics they are teaching to other branches of mathematics or to real-world applications. The lesson presented in this article, which uses the algebraic skill of finding the equation of a line between two points and the geometric axiom that any two points define a line, does both. A…

  20. Causal versus Diagnostic Contingencies: On Self-Deception and On the Voter’s Illusion.

    DTIC Science & Technology

    1983-06-01

    which requires them to submerge their forearm into a chest of circulating cold water until they can no longer tolerate it. Subjects then pedaled an...Barber Human Factors Engineering Branch HQS, Department of the Army Code 1226 DAPE- MBR Pacific Missile Test Center Washington, D. C. 20310 Point Mugu

  1. 76 FR 9358 - Notice of Proposed Withdrawal Extension and Opportunity for Public Meeting; Montana

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-02-17

    ... DEPARTMENT OF THE INTERIOR Bureau of Land Management [MTM 067221] Notice of Proposed Withdrawal Extension and Opportunity for Public Meeting; Montana AGENCY: Bureau of Land Management, Interior. ACTION.... Cynthia Staszak, Chief, Branch of Land Resources. [FR Doc. 2011-3617 Filed 2-16-11; 8:45 am] BILLING CODE...

  2. Lessons learned: the switch from VMS to UNIX operations for the STScI's Science and Mission Scheduling Branch

    NASA Astrophysics Data System (ADS)

    Adler, David S.; Workman, William M., III; Chance, Don

    2004-09-01

    The Science and Mission Scheduling Branch (SMSB) of the Space Telescope Science Institute (STScI) historically operated exclusively under VMS. Due to diminished support for VMS-based platforms at STScI, SMSB recently transitioned to Unix operations. No additional resources were available to the group; the project was SMSB's to design, develop, and implement. Early decisions included the choice of Python as the primary scripting language; adoption of Object-Oriented Design in the development of base utilities; and the development of a Python utility to interact directly with the Sybase database. The project was completed in January 2004 with the implementation of a GUI to generate the Command Loads that are uplinked to HST. The current tool suite consists of 31 utilities and 271 tools comprising over 60,000 lines of code. In this paper, we summarize the decision-making process used to determine the primary scripting language, database interface, and code management library. We also describe the finished product and summarize lessons learned along the way to completing the project.

  3. MELCOR/CONTAIN LMR Implementation Report-Progress FY15

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

    Humphries, Larry L.; Louie, David L.Y.

    2016-01-01

    This report describes the progress of the CONTAIN-LMR sodium physics and chemistry models to be implemented in to MELCOR 2.1. It also describes the progress to implement these models into CONT AIN 2 as well. In the past two years, the implementation included the addition of sodium equations of state and sodium properties from two different sources. The first source is based on the previous work done by Idaho National Laborat ory by modifying MELCOR to include liquid lithium equation of state as a working fluid to mode l the nuclear fusion safety research. The second source uses properties generatedmore » for the SIMMER code. Testing and results from this implementation of sodium pr operties are given. In addition, the CONTAIN-LMR code was derived from an early version of C ONTAIN code. Many physical models that were developed sin ce this early version of CONTAIN are not captured by this early code version. Therefore, CONTAIN 2 is being updated with the sodium models in CONTAIN-LMR in or der to facilitate verification of these models with the MELCOR code. Although CONTAIN 2, which represents the latest development of CONTAIN, now contains ma ny of the sodium specific models, this work is not complete due to challenges from the lower cell architecture in CONTAIN 2, which is different from CONTAIN- LMR. This implementation should be completed in the coming year, while sodi um models from C ONTAIN-LMR are being integrated into MELCOR. For testing, CONTAIN decks have been developed for verification and validation use. In terms of implementing the sodium m odels into MELCOR, a separate sodium model branch was created for this document . Because of massive development in the main stream MELCOR 2.1 code and the require ment to merge the latest code version into this branch, the integration of the s odium models were re-directed to implement the sodium chemistry models first. This change led to delays of the actual implementation. For aid in the future implementation of sodium models, a new sodium chemistry package was created. Thus reporting for the implementation of the sodium chemistry is discussed in this report.« less

  4. Lexical analysis of the Code of Medical Ethics of the Federal Council of Medicine.

    PubMed

    Andrade, Edson de Oliveira; Andrade, Edson de Oliveira

    2016-04-01

    The Code of Medical Ethics (CME) of the Federal Council of Medicine is the legal document that exposes the moral discourse of Brazilian physicians to society and the profession. It is a set of propositions based on which doctors say they are committed to values of conduct aimed at fair and proper professional practice. To verify through lexical analysis of the CME corpus if the goals presented in the arguments of the resolution that established the code are properly addressed in these regulations. This is a quantitative and qualitative study of descriptive nature, aiming at a lexical analysis of the CME. The lexical analysis was performed using a method of Top-Down Hierarchical Classification of vocabulary, as described by Reinert in 1987, assuming that words used in similar contexts are associated with a single lexical world. In addition to the analysis of results, an improved representation of the charts related with Factorial and Similitude Analyses was made. Six clusters were extracted, leading to the identification of three major branches: health care, professional practice and research. These branches revolve around the figures of physician and patient. The similitude analysis revealed a complementarity status between these two figures. The lexical analysis showed that the purposes contained in the resolution that established the CME were adequately represented in the document body.

  5. The glycogen synthase 2 gene (Gys2) displays parallel evolution between Old World and New World fruit bats.

    PubMed

    Qian, Yamin; Fang, Tao; Shen, Bin; Zhang, Shuyi

    2014-01-01

    Frugivorous and nectarivorous bats rely largely on hepatic glycogenesis and glycogenolysis for postprandial blood glucose disposal and maintenance of glucose homeostasis during short time starvation, respectively. The glycogen synthase 2 encoded by the Gys2 gene plays a critical role in liver glycogen synthesis. To test whether the Gys2 gene has undergone adaptive evolution in bats with carbohydrate-rich diets in relation to their insect-eating sister taxa, we sequenced the coding region of the Gys2 gene in a number of bat species, including three Old World fruit bats (OWFBs) (Pteropodidae) and two New World fruit bats (NWFBs) (Phyllostomidae). Our results showed that the Gys2 coding sequences are highly conserved across all bat species we examined, and no evidence of positive selection was detected in the ancestral branches leading to OWFBs and NWFBs. Our explicit convergence test showed that posterior probabilities of convergence between several branches of OWFBs, and the NWFBs were markedly higher than that of divergence. Three parallel amino acid substitutions (Q72H, K371Q, and E666D) were detected among branches of OWFBs and NWFBs. Tests for parallel evolution showed that two parallel substitutions (Q72H and E666D) were driven by natural selection, while the K371Q was more likely to be fixed randomly. Thus, our results suggested that the Gys2 gene has undergone parallel evolution on amino acid level between OWFBs and NWFBs in relation to their carbohydrate metabolism.

  6. Improvements in the MGA Code Provide Flexibility and Better Error Analysis

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

    Ruhter, W D; Kerr, J

    2005-05-26

    The Multi-Group Analysis (MGA) code is widely used to determine nondestructively the relative isotopic abundances of plutonium by gamma-ray spectrometry. MGA users have expressed concern about the lack of flexibility and transparency in the code. Users often have to ask the code developers for modifications to the code to accommodate new measurement situations, such as additional peaks being present in the plutonium spectrum or expected peaks being absent. We are testing several new improvements to a prototype, general gamma-ray isotopic analysis tool with the intent of either revising or replacing the MGA code. These improvements will give the user themore » ability to modify, add, or delete the gamma- and x-ray energies and branching intensities used by the code in determining a more precise gain and in the determination of the relative detection efficiency. We have also fully integrated the determination of the relative isotopic abundances with the determination of the relative detection efficiency to provide a more accurate determination of the errors in the relative isotopic abundances. We provide details in this paper on these improvements and a comparison of results obtained with current versions of the MGA code.« less

  7. Identifying the Basal Angiosperm Node in Chloroplast GenomePhylogenies: Sampling One's Way Out of the Felsenstein Zone

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

    Leebens-Mack, Jim; Raubeson, Linda A.; Cui, Liying

    2005-05-27

    While there has been strong support for Amborella and Nymphaeales (water lilies) as branching from basal-most nodes in the angiosperm phylogeny, this hypothesis has recently been challenged by phylogenetic analyses of 61 protein-coding genes extracted from the chloroplast genome sequences of Amborella, Nymphaea and 12 other available land plant chloroplast genomes. These character-rich analyses placed the monocots, represented by three grasses (Poaceae), as sister to all other extant angiosperm lineages. We have extracted protein-coding regions from draft sequences for six additional chloroplast genomes to test whether this surprising result could be an artifact of long-branch attraction due to limited taxonmore » sampling. The added taxa include three monocots (Acorus, Yucca and Typha), a water lily (Nuphar), a ranunculid(Ranunculus), and a gymnosperm (Ginkgo). Phylogenetic analyses of the expanded DNA and protein datasets together with microstructural characters (indels) provided unambiguous support for Amborella and the Nymphaeales as branching from the basal-most nodes in the angiospermphylogeny. However, their relative positions proved to be dependent on method of analysis, with parsimony favoring Amborella as sister to all other angiosperms, and maximum likelihood and neighbor-joining methods favoring an Amborella + Nympheales clade as sister. The maximum likelihood phylogeny supported the later hypothesis, but the likelihood for the former hypothesis was not significantly different. Parametric bootstrap analysis, single gene phylogenies, estimated divergence dates and conflicting in del characters all help to illuminate the nature of the conflict in resolution of the most basal nodes in the angiospermphylogeny. Molecular dating analyses provided median age estimates of 161 mya for the most recent common ancestor of all extant angiosperms and 145 mya for the most recent common ancestor of monocots, magnoliids andeudicots. Whereas long sequences reduce variance in branch lengths and molecular dating estimates, the impact of improved taxon sampling on the rooting of the angiosperm phylogeny together with the results of parametric bootstrap analyses demonstrate how long-branch attraction can mislead genome-scale phylogenetic analyses.« less

  8. "GSFC FSB Application of Perspective-Based Inspections"

    NASA Technical Reports Server (NTRS)

    Shell, Elaine; Shull, Forrest

    2004-01-01

    The scope of work described in our proposal consisted of developing inspection standards targeted to Branch-specific types of defects (gained from analysis of Branch project defect histories), and including Branch-relevant perspectives and questions to guide defect detection. The tailored inspection guidelines were to be applied on real Branch projects with support as needed from the technology infusion team. This still accurately describes the scope of work performed. It was originally proposed that the Perspective-Based inspection standard would be applied on three projects within the Branch: GPM, JWST, and SDO. Rather than apply the proposed standard to all three, we inserted a new step, in which the standard was instead applied on a single pilot project, cFE (described above). This decision was a good match for the Branch goals since, due to the "design for reuse" nature of cFE, inspections played an even more crucial than usual role in that development process. Also, since cFE is being designed to provide general-purpose functionality, key representatives fiom our target projects were involved in inspections of cFE to provide perspectives from different missions. In this way, they could get some exposure to and the chance to provide feedback on the proposed standards before applying them on their own projects. The Branch-baselined standards will still be applied on GPM, JWST, and SDO, although outside the time frame of this funding. Finally, we originally proposed using the analysis of Branch defect sources to indicate in which phases Perspective-Based inspections could provide the best potential for future improvement, although experience on previous Branch projects suggested that our efforts would likely be focused on requirements and code inspections. In the actual work, we focused exclusively on requirements inspections, as this was the highest-priority work currently being done on our cFE pilot project.

  9. Linear pressure profile estimation along a penstock associated with transients due to severe defects

    NASA Astrophysics Data System (ADS)

    Kueny, J. L.; Combes, G.; Lourenço, M.; Clary, V.; Ballester, J. L.

    2014-03-01

    The purpose of this article is to show how the pressure load profile along a penstock of an hydroplant and the corresponding flow rate is obtained from the pressure signal using a code called ACHYL CF. In particular the paper will present how it is possible to reconstruct the history of the incident after a strong transient state, in the case of two plants with Pelton turbines and one DSPCF device on a branch of the circuit. For plant1 the DSPCF device observes an overrun of the maximal allowed pressure after the filling of the injector branch and for plant_2, a strong transient leads to the rupture of the penstock.

  10. Walker Branch Throughfall Displacement Experiment Data Report: Site Characterization, System Performance, Weather, Species Composition, and Growth (NDP-078 and 078A)

    DOE Data Explorer

    Cushman, Robert M. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States), Carbon Dioxide Information Analysis Center, Environmental Sciences Division; Hanson, Paul J. [Oak Ridge National Laboratory, Oak Ridge, TN (USA), Environmental Sciences Division; Todd, Donald E. [Oak Ridge National Laboratory, Oak Ridge, TN (USA), Environmental Sciences Division; Riggs, Jeffery S. [Oak Ridge National Laboratory, Oak Ridge, TN (USA), Instrumentation and Controls Division; Wolfe, Mark E. [Tennessee Valley Authority, Norris, TN (USA); O'Neill, Elizabeth G. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States), Environmental Sciences Division

    2001-07-01

    This numeric data package provides data sets, and accompanying documentation, on site characterization, system performance, weather, species composition, and growth for the Throughfall Displacement Experiment, which was established in the Walker Branch Watershed of East Tennessee to provide data on the responses of forests to altered precipitation regimes. The specific data sets include soil water content and potential, coarse fraction of the soil profile, litter layer temperature, soil temperature, monthly weather, daily weather, hourly weather, species composition of trees and saplings, mature tree and sapling annual growth, and relative leaf area index. Fortran and SAS(TM) access codes are provided to read the ASCII data files.

  11. A Martingale Characterization of Mixed Poisson Processes.

    DTIC Science & Technology

    1985-10-01

    03LA A 11. TITLE (Inciuae Security Clanafication, ",A martingale characterization of mixed Poisson processes " ________________ 12. PERSONAL AUTHOR... POISSON PROCESSES Jostification .......... . ... . . Di.;t ib,,jtion by Availability Codes Dietmar Pfeifer* Technical University Aachen Dist Special and...Mixed Poisson processes play an important role in many branches of applied probability, for instance in insurance mathematics and physics (see Albrecht

  12. Proceedings of the 1985 Annual DTIC (Defense Technical Information Center) Users Conference Held in Alexandria, Virginia on 23-25 October 1985

    DTIC Science & Technology

    1985-10-01

    Donovan Space Communications Company 1300 Quince Orchard Boulevard Gaithersburg, MD 20878 Joyce H. Deegan Rockwell International Corporation 1200 N...J. P. Norton Engineered Air Systems 1270 N. Price Road St. Louis, MO 63132 Craig L. Pelz Naval Weapons Center Information Services Branch Code

  13. 75 FR 19245 - Drawbridge Operation Regulation; Elizabeth River, Eastern Branch, VA

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-04-14

    ....1007(b) and (c) to facilitate the resurfacing of the bridge roadway, as modified by the temporary... severe or inclement weather occurs, the alternate closure dates will be rescheduled to May 7-10, 2010 and..., Acting Commander, Fifth Coast Guard District. [FR Doc. 2010-8476 Filed 4-13-10; 8:45 am] BILLING CODE...

  14. Defining and Applying Limits for Test and Flight Through the Project Lifecycle GSFC Standard. [Scope: Non-Cryogenic Systems Tested in Vacuum

    NASA Technical Reports Server (NTRS)

    Mosier, Carol

    2015-01-01

    The presentation will be given at the Annual Thermal Fluids Analysis Workshop (TFAWS 2015, NCTS 21070-15) hosted by the Goddard SpaceFlight Center (GSFC) Thermal Engineering Branch (Code 545). The powerpoint presentation details the process of defining limits throughout the lifecycle of a flight project.

  15. Modelling of RR Lyrae instability strips

    NASA Astrophysics Data System (ADS)

    Szabo, Robert; Csubry, Zoltan

    2001-02-01

    Recent studies indicates that the slope of the empirical blue edge of the RR Lyrae fundamental mode instability strip is irreconcilable with the theoretical blue edges. Nonlinear hydrodynamical pulsational code involving turbulent convection was used to follow fundamental/first overtone mode selection mechanism. This method combined with the results of horizontal branch evolutionary computations was applied to rethink the problem.

  16. 76 FR 41516 - Notice of Proposed Withdrawal Extension and Notification of a Public Meeting; Montana; Correction

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-07-14

    ... DEPARTMENT OF THE INTERIOR Bureau of Land Management [61510-8451-0000; MTM 80092] Notice of Proposed Withdrawal Extension and Notification of a Public Meeting; Montana; Correction AGENCY: Bureau of... Staszak, Chief, Branch of Land Resources. [FR Doc. 2011-17716 Filed 7-13-11; 8:45 am] BILLING CODE 4310-55...

  17. 75 FR 55604 - Notice of Proposed Withdrawal Extension and Opportunity for Public Meeting; Montana

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-09-13

    ... DEPARTMENT OF THE INTERIOR Bureau of Land Management [LLMTM01000-L14300000.ET0000; MTM 79264] Notice of Proposed Withdrawal Extension and Opportunity for Public Meeting; Montana AGENCY: Bureau of... Miller, Acting Chief, Branch of Land Resources. [FR Doc. 2010-22740 Filed 9-10-10; 8:45 am] BILLING CODE...

  18. Verification of GENE and GYRO with L-mode and I-mode plasmas in Alcator C-Mod

    NASA Astrophysics Data System (ADS)

    Mikkelsen, D. R.; Howard, N. T.; White, A. E.; Creely, A. J.

    2018-04-01

    Verification comparisons are carried out for L-mode and I-mode plasma conditions in Alcator C-Mod. We compare linear and nonlinear ion-scale calculations by the gyrokinetic codes GENE and GYRO to each other and to the experimental power balance analysis. The two gyrokinetic codes' linear growth rates and real frequencies are in good agreement throughout all the ion temperature gradient mode branches and most of the trapped electron mode branches of the kyρs spectra at r/a = 0.65, 0.7, and 0.8. The shapes of the toroidal mode spectra of heat fluxes in nonlinear simulations are very similar for kyρs ≤ 0.5, but in most cases GENE has a relatively higher heat flux than GYRO at higher mode numbers. The ratio of ion to electron heat flux is similar in the two codes' simulations, but the heat fluxes themselves do not agree in almost all cases. In the I-mode regime, GENE's heat fluxes are ˜3 times those from GYRO, and they are ˜60%-100% higher than GYRO in the L-mode conditions. The GYRO under-prediction of Qe is much reduced in GENE's L-mode simulations, and it is eliminated in the I-mode simulations. This largely improved agreement with the experimental electron heat flux is offset, however, by the large overshoot of GENE's ion heat fluxes, which are 2-3 times the experimental level, and its electron heat flux overshoot at r/a = 0.80 in the I-mode. Rotation effects can explain part of the difference between the two codes' predictions, but very significant differences remain in simulations without any rotation effects.

  19. [Standardization of terminology in laboratory medicine I].

    PubMed

    Yoon, Soo Young; Yoon, Jong Hyun; Min, Won Ki; Lim, Hwan Sub; Song, Junghan; Chae, Seok Lae; Lee, Chang Kyu; Kwon, Jung Ah; Lee, Kap No

    2007-04-01

    Standardization of medical terminology is essential for data transmission between health-care institutions or clinical laboratories and for maximizing the benefits of information technology. Purpose of our study was to standardize the medical terms used in the clinical laboratory, such as test names, units, terms used in result descriptions, etc. During the first year of the study, we developed a standard database of concept names for laboratory terms, which covered the terms used in government health care centers, their branch offices, and primary health care units. Laboratory terms were collected from the electronic data interchange (EDI) codes from National Health Insurance Corporation (NHIC), Logical Observation Identifier Names and Codes (LOINC) database, community health centers and their branch offices, and clinical laboratories of representative university medical centers. For standard expression, we referred to the English-Korean/ Korean-English medical dictionary of Korean Medical Association and the rules for foreign language translation. Programs for mapping between LOINC DB and EDI code and for translating English to Korean were developed. A Korean standard laboratory terminology database containing six axial concept names such as components, property, time aspect, system (specimen), scale type, and method type was established for 7,508 test observations. Short names and a mapping table for EDI codes and Unified Medical Language System (UMLS) were added. Synonym tables for concept names, words used in the database, and six axial terms were prepared to make it easier to find the standard terminology with common terms used in the field of laboratory medicine. Here we report for the first time a Korean standard laboratory terminology database for test names, result description terms, result units covering most laboratory tests in primary healthcare centers.

  20. Protection of Mobile Agents Execution Using a Modified Self-Validating Branch-Based Software Watermarking with External Sentinel

    NASA Astrophysics Data System (ADS)

    Tomàs-Buliart, Joan; Fernández, Marcel; Soriano, Miguel

    Critical infrastructures are usually controlled by software entities. To monitor the well-function of these entities, a solution based in the use of mobile agents is proposed. Some proposals to detect modifications of mobile agents, as digital signature of code, exist but they are oriented to protect software against modification or to verify that an agent have been executed correctly. The aim of our proposal is to guarantee that the software is being executed correctly by a non trusted host. The way proposed to achieve this objective is by the improvement of the Self-Validating Branch-Based Software Watermarking by Myles et al.. The proposed modification is the incorporation of an external element called sentinel which controls branch targets. This technique applied in mobile agents can guarantee the correct operation of an agent or, at least, can detect suspicious behaviours of a malicious host during the execution of the agent instead of detecting when the execution of the agent have finished.

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

    Prentice, John K.; Gardner, David Randall

    A methodology was developed for computing the probability that the sensor dart for the 'Near Real-Time Site Characterization for Assured HDBT Defeat' Grand-Challenge LDRD project will survive deployment over a forested region. The probability can be decomposed into three approximately independent probabilities that account for forest coverage, branch density and the physics of an impact between the dart and a tree branch. The probability that a dart survives an impact with a tree branch was determined from the deflection induced by the impact. If a dart that was deflected so that it impacted the ground at an angle of attackmore » exceeding a user-specified, threshold value, the dart was assumed to not survive the impact with the branch; otherwise it was assumed to have survived. A computer code was developed for calculating dart angle of attack at impact with the ground and a Monte Carlo scheme was used to calculate the probability distribution of a sensor dart surviving an impact with a branch as a function of branch radius, length, and height from the ground. Both an early prototype design and the current dart design were used in these studies. As a general rule of thumb, it we observed that for reasonably generic trees and for a threshold angle of attack of 5{sup o} (which is conservative for dart survival), the probability of reaching the ground with an angle of attack less than the threshold is on the order of 30% for the prototype dart design and 60% for the current dart design, though these numbers should be treated with some caution.« less

  2. Testing for Independence between Evolutionary Processes.

    PubMed

    Behdenna, Abdelkader; Pothier, Joël; Abby, Sophie S; Lambert, Amaury; Achaz, Guillaume

    2016-09-01

    Evolutionary events co-occurring along phylogenetic trees usually point to complex adaptive phenomena, sometimes implicating epistasis. While a number of methods have been developed to account for co-occurrence of events on the same internal or external branch of an evolutionary tree, there is a need to account for the larger diversity of possible relative positions of events in a tree. Here we propose a method to quantify to what extent two or more evolutionary events are associated on a phylogenetic tree. The method is applicable to any discrete character, like substitutions within a coding sequence or gains/losses of a biological function. Our method uses a general approach to statistically test for significant associations between events along the tree, which encompasses both events inseparable on the same branch, and events genealogically ordered on different branches. It assumes that the phylogeny and themapping of branches is known without errors. We address this problem from the statistical viewpoint by a linear algebra representation of the localization of the evolutionary events on the tree.We compute the full probability distribution of the number of paired events occurring in the same branch or in different branches of the tree, under a null model of independence where each type of event occurs at a constant rate uniformly inthephylogenetic tree. The strengths andweaknesses of themethodare assessed via simulations;we then apply the method to explore the loss of cell motility in intracellular pathogens. © The Author(s) 2016. Published by Oxford University Press, on behalf of the Society of Systematic Biologists. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

  3. MELCOR/CONTAIN LMR Implementation Report - FY16 Progress.

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

    Louie, David; Humphries, Larry L.

    2016-11-01

    This report describes the progress of the CONTAIN - LMR sodium physics and chemistry models to be implemented in MELCOR 2.1. In the past three years , the implementation included the addition of sodium equations of state and sodium properties from two different sources. The first source is based on the previous work done by Idaho National Laboratory by modifying MELCOR to include liquid lithium equation of state as a working fluid to model the nuclear fusion safety research. The second source uses properties generated for the SIMMER code. The implemented modeling has been tested and results are reported inmore » this document. In addition, the CONTAIN - LMR code was derived from an early version of the CONTAIN code, and many physical models that were developed since this early version of CONTAIN are not available in this early code version. Therefore, CONTAIN 2 has been updated with the sodium models in CONTAIN - LMR as CONTAIN2 - LMR, which may be used to provide code-to-code comparison with CONTAIN - LMR and MELCOR when the sodium chemistry models from CONTAIN - LMR have been completed. Both the spray fire and pool fire chemistry routines from CONTAIN - LMR have been integrated into MELCOR 2.1, and debugging and testing are in progress. Because MELCOR only models the equation of state for liquid and gas phases of the coolant, a modeling gap still exists when dealing with experiments or accident conditions that take place when the ambient temperature is below the freezing point of sodium. An alternative method is under investigation to overcome this gap . We are no longer working on the separate branch from the main branch of MELCOR 2.1 since the major modeling of MELCOR 2.1 has been completed. At the current stage, the newly implemented sodium chemistry models will be a part of the main MELCOR release version (MELCOR 2.2). This report will discuss the accomplishments and issues relating to the implementation. Also, we will report on the planned completion of all remaining tasks in the upcoming FY2017, including the atmospheric chemistry model and sodium - concrete interaction model implementation .« less

  4. CLIPS: A tool for the development and delivery of expert systems

    NASA Technical Reports Server (NTRS)

    Riley, Gary

    1991-01-01

    The C Language Integrated Production System (CLIPS) is a forward chaining rule-based language developed by the Software Technology Branch at the Johnson Space Center. CLIPS provides a complete environment for the construction of rule-based expert systems. CLIPS was designed specifically to provide high probability, low cost, and easy integration with external systems. Other key features of CLIPS include a powerful rule syntax, an interactive development environment, high performance, extensibility, a verification/validation tool, extensive documentation, and source code availability. The current release of CLIPS, version 4.3, is being used by over 2,500 users throughout the public and private community including: all NASA sites and branches of the military, numerous Federal bureaus, government contractors, 140 universities, and many companies.

  5. Biochemical and Anatomical Characteristics of Dolphin Muscles.

    DTIC Science & Technology

    1984-01-01

    the Bioengineering Branch (Code 5143) of the Naval Ocean Systems Center and the Kinesiology Department of the University of California, Los Angeles...such a sample. TENDON ANALYSES The biochemistry of the dolphin tendon suggests that this tissue is well adapted to withstand large forces and significant...neuromuscular physiology, connective tissue, and muscle biochemistry . A detailed proposal outlining the goals, approach, milestones, and costs for

  6. Contamination Control for Thermal Engineers

    NASA Technical Reports Server (NTRS)

    Rivera, Rachel B.

    2015-01-01

    The presentation will be given at the 26th Annual Thermal Fluids Analysis Workshop (TFAWS 2015) hosted by the Goddard Spaceflight Center (GSFC) Thermal Engineering Branch (Code 545). This course will cover the basics of Contamination Control, including contamination control related failures, the effects of contamination on Flight Hardware, what contamination requirements translate to, design methodology, and implementing contamination control into Integration, Testing and Launch.

  7. Notes from the Field: Baskeet Phonological Sketch and Digital Wordlist

    ERIC Educational Resources Information Center

    Treis, Yvonne; Werth, Alexander

    2014-01-01

    In literature, "Baskeet," also known by the Amharic term, "Basketo," is an Omotic language spoken by about 80,000 speakers in the Basketo Special Woreda and in the Melokoza Woreda of the Gamo-Gofa Zone in the Southern Region of Ethiopia. Baskeet (ISO 639-3 code: bst) belongs to the Ometo branch of North Omotic and is hitherto…

  8. To amend title 39, United States Code, to provide that the procedures governing the closure or consolidation of postal branches and stations shall be the same as those applicable in the case of post offices.

    THOMAS, 111th Congress

    Rep. Sestak, Joe [D-PA-7

    2010-02-04

    House - 05/25/2010 Referred to the Subcommittee on Federal Workforce, Post Office, and the District of Columbia. (All Actions) Tracker: This bill has the status IntroducedHere are the steps for Status of Legislation:

  9. Constitutive relations in TRAC-P1A

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

    Rohatgi, U.S.; Saha, P.

    1980-08-01

    The purpose of this document is to describe the basic thermal-hydraulic models and correlations that are in the TRAC-P1A code, as released in March 1979. It is divided into two parts, A and B. Part A describes the models in the three-dimensional vessel module of TRAC, whereas Part B focuses on the loop components that are treated by one-dimensional formulations. The report follows the format of the questions prepared by the Analysis Development Branch of USNRC and the questionnaire has been attached to this document for completeness. Concerted efforts have been made in understanding the present models in TRAC-P1A bymore » going through the FORTRAN listing of the code. Some discrepancies between the code and the TRAC-P1A manual have been found. These are pointed out in this document. Efforts have also been made to check the TRAC references for the range of applicability of the models and correlations used in the code. 26 refs., 5 figs., 1 tab.« less

  10. Multiple measures could alleviate long-branch attraction in phylogenomic reconstruction of Cupressoideae (Cupressaceae)

    PubMed Central

    Qu, Xiao-Jian; Jin, Jian-Jun; Chaw, Shu-Miaw; Li, De-Zhu; Yi, Ting-Shuang

    2017-01-01

    Long-branch attraction (LBA) is a major obstacle in phylogenetic reconstruction. The phylogenetic relationships among Juniperus (J), Cupressus (C) and the Hesperocyparis-Callitropsis-Xanthocyparis (HCX) subclades of Cupressoideae are controversial. Our initial analyses of plastid protein-coding gene matrix revealed both J and C with much longer stem branches than those of HCX, so their sister relationships may be attributed to LBA. We used multiple measures including data filtering and modifying, evolutionary model selection and coalescent phylogenetic reconstruction to alleviate the LBA artifact. Data filtering by strictly removing unreliable aligned regions and removing substitution saturation genes and rapidly evolving sites could significantly reduce branch lengths of subclades J and C and recovered a relationship of J (C, HCX). In addition, using coalescent phylogenetic reconstruction could elucidate the LBA artifact and recovered J (C, HCX). However, some valid methods for other taxa were inefficient in alleviating the LBA artifact in J-C-HCX. Different strategies should be carefully considered and justified to reduce LBA in phylogenetic reconstruction of different groups. Three subclades of J-C-HCX were estimated to have experienced ancient rapid divergence within a short period, which could be another major obstacle in resolving relationships. Furthermore, our plastid phylogenomic analyses fully resolved the intergeneric relationships of Cupressoideae. PMID:28120880

  11. Multiple measures could alleviate long-branch attraction in phylogenomic reconstruction of Cupressoideae (Cupressaceae).

    PubMed

    Qu, Xiao-Jian; Jin, Jian-Jun; Chaw, Shu-Miaw; Li, De-Zhu; Yi, Ting-Shuang

    2017-01-25

    Long-branch attraction (LBA) is a major obstacle in phylogenetic reconstruction. The phylogenetic relationships among Juniperus (J), Cupressus (C) and the Hesperocyparis-Callitropsis-Xanthocyparis (HCX) subclades of Cupressoideae are controversial. Our initial analyses of plastid protein-coding gene matrix revealed both J and C with much longer stem branches than those of HCX, so their sister relationships may be attributed to LBA. We used multiple measures including data filtering and modifying, evolutionary model selection and coalescent phylogenetic reconstruction to alleviate the LBA artifact. Data filtering by strictly removing unreliable aligned regions and removing substitution saturation genes and rapidly evolving sites could significantly reduce branch lengths of subclades J and C and recovered a relationship of J (C, HCX). In addition, using coalescent phylogenetic reconstruction could elucidate the LBA artifact and recovered J (C, HCX). However, some valid methods for other taxa were inefficient in alleviating the LBA artifact in J-C-HCX. Different strategies should be carefully considered and justified to reduce LBA in phylogenetic reconstruction of different groups. Three subclades of J-C-HCX were estimated to have experienced ancient rapid divergence within a short period, which could be another major obstacle in resolving relationships. Furthermore, our plastid phylogenomic analyses fully resolved the intergeneric relationships of Cupressoideae.

  12. Detection of Pathways Affected by Positive Selection in Primate Lineages Ancestral to Humans

    PubMed Central

    Moretti, S.; Davydov, I.I.; Excoffier, L.

    2017-01-01

    Abstract Gene set enrichment approaches have been increasingly successful in finding signals of recent polygenic selection in the human genome. In this study, we aim at detecting biological pathways affected by positive selection in more ancient human evolutionary history. Focusing on four branches of the primate tree that lead to modern humans, we tested all available protein coding gene trees of the Primates clade for signals of adaptation in these branches, using the likelihood-based branch site test of positive selection. The results of these locus-specific tests were then used as input for a gene set enrichment test, where whole pathways are globally scored for a signal of positive selection, instead of focusing only on outlier “significant” genes. We identified signals of positive selection in several pathways that are mainly involved in immune response, sensory perception, metabolism, and energy production. These pathway-level results are highly significant, even though there is no functional enrichment when only focusing on top scoring genes. Interestingly, several gene sets are found significant at multiple levels in the phylogeny, but different genes are responsible for the selection signal in the different branches. This suggests that the same function has been optimized in different ways at different times in primate evolution. PMID:28333345

  13. Implementation and Testing of the JANUS Standard with SSC Pacific’s Software-Defined Acoustic Modem

    DTIC Science & Technology

    2017-12-01

    Communications Outpost (FDECO) Innovative Naval Prototype (INP) Program by the Advanced Photonic Technologies Branch (Code 55360), Space and Naval Warfare... Communications and Networks Division iii EXECUTIVE SUMMARY This report presents Space and Naval Warfare (SPAWAR) Systems Center Pacific’s (SSC... Frequency -Hopped Binary Frequency Shift Keying Office of Naval Research Innovative Naval Prototype Forward Deployed Energy and Communications Outpost

  14. 26 CFR 1.987-5 - Transition rules for certain qualified business units using a profit and loss method of...

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... of United States persons that have a nondollar functional currency and that used a net worth method...) branches of United States persons, whose functional currency (as defined in section 985 of the Code and the regulations thereunder) is other than the United States dollar (dollar) and that used a profit and loss method...

  15. Modeling Interferometric Structures with Birefringent Elements: A Linear Vector-Space Formalism

    DTIC Science & Technology

    2013-11-12

    Annapolis, Maryland ViNceNt J. Urick FraNk BUcholtz Photonics Technology Branch Optical Sciences Division i REPORT DOCUMENTATION PAGE Form...a Linear Vector-Space Formalism Nicholas J. Frigo,1 Vincent J. Urick , and Frank Bucholtz Naval Research Laboratory, Code 5650 4555 Overlook Avenue, SW...Annapolis, MD Unclassified Unlimited Unclassified Unlimited Unclassified Unlimited Unclassified Unlimited 29 Vincent J. Urick (202) 767-9352 Coupled mode

  16. Format Guide for Scientific and Technical Reports.

    DTIC Science & Technology

    1984-01-01

    supported by the discussion. Graphkic Services The Graphic Services Section (Code 2632) provides a variety of layout and design services. Camera-ready artwork...complex typography , elaborate graphic elements, extensive computer printouts, and other unusual materials that explain the project. With few exceptions...2630 Publications Branch Office 222/253 72379 S Publications Control Center 222/253 73508 Editorial 222/253 72782 Graphic Services 222/234 72756 73989

  17. Effective Schedule and Cost Management as a Product Development Lead

    NASA Technical Reports Server (NTRS)

    Simmons, Cynthia

    2015-01-01

    The presentation will be given at the 26th Annual Thermal Fluids Analysis Workshop (TFAWS 2015) hosted by the Goddard SpaceFlight Center (GSFC) Thermal Engineering Branch (Code 545). This course provides best practices, helpful tools and lessons learned for staying on plan and day-to-day management of Subsystem flight development after getting Project approval for your Subsystem schedule and budget baseline.

  18. Three-Level De-Multiplexed Dual-Branch Complex Delta-Sigma Transmitter.

    PubMed

    Arfi, Anis Ben; Elsayed, Fahmi; Aflaki, Pouya M; Morris, Brad; Ghannouchi, Fadhel M

    2018-02-20

    In this paper, a dual-branch topology driven by a Delta-Sigma Modulator (DSM) with a complex quantizer, also known as the Complex Delta Sigma Modulator (CxDSM), with a 3-level quantized output signal is proposed. By de-multiplexing the 3-level Delta-Sigma-quantized signal into two bi-level streams, an efficiency enhancement over the operational frequency range is achieved. The de-multiplexed signals drive a dual-branch amplification block composed of two switch-mode back-to-back power amplifiers working at peak power. A signal processing technique known as quantization noise reduction with In-band Filtering (QNRIF) is applied to each of the de-multiplexed streams to boost the overall performances; particularly the Adjacent Channel Leakage Ratio (ACLR). After amplification, the two branches are combined using a non-isolated combiner, preserving the efficiency of the transmitter. A comprehensive study on the operation of this topology and signal characteristics used to drive the dual-branch Switch-Mode Power Amplifiers (SMPAs) was established. Moreover, this work proposes a highly efficient design of the amplification block based on a back-to-back power topology performing a dynamic load modulation exploiting the non-overlapping properties of the de-multiplexed Complex DSM signal. For experimental validation, the proposed de-multiplexed 3-level Delta-Sigma topology was implemented on the BEEcube™ platform followed by the back-to-back Class-E switch-mode power amplification block. The full transceiver is assessed using a 4th-Generation mobile communications standard LTE (Long Term Evolution) standard 1.4 MHz signal with a peak to average power ratio (PAPR) of 8 dB. The dual-branch topology exhibited a good linearity and a coding efficiency of the transmitter chain higher than 72% across the band of frequency from 1.8 GHz to 2.7 GHz.

  19. Modeling of milk flow in mammary ducts in lactating human female breast.

    PubMed

    Mortazavi, S Negin; Geddes, Donna; Hassanipour, Fatemeh

    2014-01-01

    A transient laminar Newtonian three-dimensional CFD simulation has been studied for milk flow in a phantom model of the 6-generations human lactating breast branching system. Milk is extracted by the cyclic pattern of suction from the alveoli through the duct and to the nipple. The real negative (suction) pressure data are applied as an outlet boundary condition in nipple. In this study, the commercial CFD code (Fluent Inc., 2004) is employed for the numerical solution of the milk flow. The milk intake flow rate from simulation is compared to the real clinical data from published paper. The results are in good agreement. It is believed that the methodology of the lactating human breast branching modeling proposed here can provide potential guidelines for further clinical and research application.

  20. The influence of ignoring secondary structure on divergence time estimates from ribosomal RNA genes.

    PubMed

    Dohrmann, Martin

    2014-02-01

    Genes coding for ribosomal RNA molecules (rDNA) are among the most popular markers in molecular phylogenetics and evolution. However, coevolution of sites that code for pairing regions (stems) in the RNA secondary structure can make it challenging to obtain accurate results from such loci. While the influence of ignoring secondary structure on multiple sequence alignment and tree topology has been investigated in numerous studies, its effect on molecular divergence time estimates is still poorly known. Here, I investigate this issue in Bayesian Markov Chain Monte Carlo (BMCMC) and penalized likelihood (PL) frameworks, using empirical datasets from dragonflies (Odonata: Anisoptera) and glass sponges (Porifera: Hexactinellida). My results indicate that highly biased inferences under substitution models that ignore secondary structure only occur if maximum-likelihood estimates of branch lengths are used as input to PL dating, whereas in a BMCMC framework and in PL dating based on Bayesian consensus branch lengths, the effect is far less severe. I conclude that accounting for coevolution of paired sites in molecular dating studies is not as important as previously suggested, as long as the estimates are based on Bayesian consensus branch lengths instead of ML point estimates. This finding is especially relevant for studies where computational limitations do not allow the use of secondary-structure specific substitution models, or where accurate consensus structures cannot be predicted. I also found that the magnitude and direction (over- vs. underestimating node ages) of bias in age estimates when secondary structure is ignored was not distributed randomly across the nodes of the phylogenies, a phenomenon that requires further investigation. Copyright © 2013 Elsevier Inc. All rights reserved.

  1. Generalized Fluid System Simulation Program, Version 6.0

    NASA Technical Reports Server (NTRS)

    Majumdar, A. K.; LeClair, A. C.; Moore, A.; Schallhorn, P. A.

    2013-01-01

    The Generalized Fluid System Simulation Program (GFSSP) is a finite-volume based general-purpose computer program for analyzing steady state and time-dependant flow rates, pressures, temperatures, and concentrations in a complex flow network. The program is capable of modeling real fluids with phase changes, compressibility, mixture thermodynamics, conjugate heat transfer between solid and fluid, fluid transients, pumps, compressors and external body forces such as gravity and centrifugal. The thermo-fluid system to be analyzed is discretized into nodes, branches, and conductors. The scalar properties such as pressure, temperature, and concentrations are calculated at nodes. Mass flow rates and heat transfer rates are computed in branches and conductors. The graphical user interface allows users to build their models using the 'point, drag, and click' method; the users can also run their models and post-process the results in the same environment. The integrated fluid library supplies thermodynamic and thermo-physical properties of 36 fluids, and 24 different resistance/source options are provided for modeling momentum sources or sinks in the branches. This Technical Memorandum illustrates the application and verification of the code through 25 demonstrated example problems.

  2. Generalized Fluid System Simulation Program, Version 5.0-Educational

    NASA Technical Reports Server (NTRS)

    Majumdar, A. K.

    2011-01-01

    The Generalized Fluid System Simulation Program (GFSSP) is a finite-volume based general-purpose computer program for analyzing steady state and time-dependent flow rates, pressures, temperatures, and concentrations in a complex flow network. The program is capable of modeling real fluids with phase changes, compressibility, mixture thermodynamics, conjugate heat transfer between solid and fluid, fluid transients, pumps, compressors and external body forces such as gravity and centrifugal. The thermofluid system to be analyzed is discretized into nodes, branches, and conductors. The scalar properties such as pressure, temperature, and concentrations are calculated at nodes. Mass flow rates and heat transfer rates are computed in branches and conductors. The graphical user interface allows users to build their models using the point, drag and click method; the users can also run their models and post-process the results in the same environment. The integrated fluid library supplies thermodynamic and thermo-physical properties of 36 fluids and 21 different resistance/source options are provided for modeling momentum sources or sinks in the branches. This Technical Memorandum illustrates the application and verification of the code through 12 demonstrated example problems.

  3. Certification of CFD heat transfer software for turbine blade analysis

    NASA Technical Reports Server (NTRS)

    Jordan, William A.

    2004-01-01

    Accurate modeling of heat transfer effects is a critical component of the Turbine Branch of the Turbomachinery and Propulsion Systems Division. Being able to adequately predict and model heat flux, coolant flows, and peak temperatures are necessary for the analysis of high pressure turbine blades. To that end, the primary goal of my internship this summer will be to certify the reliability of the CFD program GlennHT for the purpose of turbine blade heat transfer analysis. GlennHT is currently in use by the engineers in the Turbine Branch who use the FORTRAN 77 version of the code for analysis. The program, however, has been updated to a FORTRAN 90 version which is more robust than the older code. In order for the new code to be distributed for use, its reliability must first be certified. Over the course of my internship I will create and run test cases using the FORTRAN 90 version of GlennHT and compare the results to older cases which are known to be accurate, If the results of the new code match those of the sample cases then the newer version will be one step closer to certification for distribution. In order to complete these it will first be necessary to become familiar with operating a number of other programs. Among them are GridPro, which is used to create a grid mesh around a blade geometry, and FieldView, whose purpose is to graphically display the results from the GlennHT program. Once enough familiarity is established with these programs to render them useful, then the work of creating and running test scenarios will begin. The work is additionally complicated by a transition in computer hardware. Most of the working computers in the Turbine Branch are Silicon Graphics machines, which will soon be replaced by LINUX PC's. My project is one of the first to make use the new PC's. The change in system architecture however, has created several software related issues which have greatly increased the time and effort investments required by the project.Although complications with the project continue to arise, it is expected that the goal of my internship can still be achieved within the remaining time period. Critical steps have been achieved and test scenarios can now be designed and run. At the completion of my internship, the FORTRAN 90 version of GlennHT should be well on its way to certification.

  4. Cost Metric Algorithms for Internetwork Applications

    DTIC Science & Technology

    1989-04-01

    5000. Released by Under authority of M. B. Vineberg, Head . X E Jahn, Head System Design and Battle Force and Theater Architechture Branch...for public release; distribution unlimited. 4. PERFORMING ORGANIZATION REPORT NUMBER(S) S. MONITORING ORGANIZATION REPORT NUMBER(S) NOSC TR 1284 6a...NAME OF PERFORMING ORGANIZATION 6b. OFFICE SYMBO 7a. NAME OF MONITORING ORGANIZATION Naval Ocean Systems Center Code 854 6c. ADDRESS (C, SftW&WZPCa

  5. Implementation and Testing of the JANUS Standard with SSC Pacific’s Software-Defined Acoustic Modem

    DTIC Science & Technology

    2017-10-01

    Communications Outpost (FDECO) Innovative Naval Prototype (INP) Program by the Advanced Photonic Technologies Branch (Code 55360), Space and Naval Warfare...underwater acoustic communication operations with NATO and non-NATO military and civilian maritime assets. iv ACRONYMS SPAWAR Space and Naval Warfare...the center frequency [1]. The ease of implementation and proven robustness in harsh underwater acoustic communication channels paved the way for

  6. AFRL Combustion Science Branch Research Activities and Capabilities

    DTIC Science & Technology

    2003-03-01

    a wide variety of partners that include other DoD organizations, NASA, DoE, . engine companies , universities, small businesses, and on-site...Dynamics with Chemistry (CFDC) code (Katta et aI., 1994) known as UNICORN (UNsteady Ignition and COmbustion with ReactioNs). UNICORN is a time- dependent...simulate a variety of dynamic flames (Roquemore and Katta, 1998). From its conception, the development of UNICORN has been strongly coupled with

  7. Post Flood Report March/April 1987.

    DTIC Science & Technology

    1987-04-01

    JUSTIICATION ELECTE _ (SJUN .3 U DISIRIBWEION / NSRCTIEDo / AVAILABILIT CODES DISr AVAIL AND/OR SPECIALHOORHT___ETADREUNTD_-_____ DATE ACCESSIONED...Cotter - Secretary Appreciation is extended to Lawrence Bergen, Chief, Water Control Branch, who gave valuable assistance to RCC during the flood. Cover...photo of spillway discharge at Knightville Dam taken by Leo Milette on 6 April 1987 at 1320 hours with 1.9 feet of water over the crest. V.- V 8 8 4*1

  8. An Introduction to Groups. Abstract Algebra. Modules and Monographs in Undergraduate Mathematics and Its Applications Project. UMAP Unit 461.

    ERIC Educational Resources Information Center

    Rosenberg, Nancy S.

    A group is viewed to be one of the simplest and most interesting algebraic structures. The theory of groups has been applied to many branches of mathematics as well as to crystallography, coding theory, quantum mechanics, and the physics of elementary particles. This material is designed to help the user: 1) understand what groups are and why they…

  9. Specifying and Verifying the Correctness of Dynamic Software Updates

    DTIC Science & Technology

    2011-11-15

    additional branching introduced by update points and the need to analyze the state transformer code. As tools become faster and more effective , our...It shows the effectiveness of merging-based verification on practical examples, including Redis [20], a widely deployed server program. 2 Defining...Gupta’s reachability while side -stepping the problem that reachability can leave behavior CS-TR-4997 under-constrained. For example, for the vsftpd update

  10. Flavin-Dependent Redox Transfers by the Two-Component Diketocamphane Monooxygenases of Camphor-Grown Pseudomonas putida NCIMB 10007

    PubMed Central

    Willetts, Andrew; Kelly, David

    2016-01-01

    The progressive titres of key monooxygenases and their requisite native donors of reducing power were used to assess the relative contribution of various camphor plasmid (CAM plasmid)- and chromosome-coded activities to biodegradation of (rac)-camphor at successive stages throughout growth of Pseudomonas putida NCIMB 10007 on the bicylic monoterpenoid. A number of different flavin reductases (FRs) have the potential to supply reduced flavin mononucleotide to both 2,5- and 3,6-diketocamphane monooxygenase, the key isoenzymic two-component monooxygenases that delineate respectively the (+)- and (−)-camphor branches of the convergent degradation pathway. Two different constitutive chromosome-coded ferric reductases able to act as FRs can serve such as role throughout all stages of camphor-dependent growth, whereas Fred, a chromosome-coded inducible FR can only play a potentially significant role in the relatively late stages. Putidaredoxin reductase, an inducible CAM plasmid-coded flavoprotein that serves an established role as a redox intermediate for plasmid-coded cytochrome P450 monooxygenase also has the potential to serve as an important FR for both diketocamphane monooxygenases (DKCMOs) throughout most stages of camphor-dependent growth. PMID:27754389

  11. Extreme multiplicity in cylindrical Rayleigh-Bénard convection. II. Bifurcation diagram and symmetry classification

    NASA Astrophysics Data System (ADS)

    Borońska, Katarzyna; Tuckerman, Laurette S.

    2010-03-01

    A large number of flows with distinctive patterns have been observed in experiments and simulations of Rayleigh-Bénard convection in a water-filled cylinder whose radius is twice the height. We have adapted a time-dependent pseudospectral code, first, to carry out Newton’s method and branch continuation and, second, to carry out the exponential power method and Arnoldi iteration to calculate leading eigenpairs and determine the stability of the steady states. The resulting bifurcation diagram represents a compromise between the tendency in the bulk toward parallel rolls and the requirement imposed by the boundary conditions that primary bifurcations be toward states whose azimuthal dependence is trigonometric. The diagram contains 17 branches of stable and unstable steady states. These can be classified geometrically as roll states containing two, three, and four rolls; axisymmetric patterns with one or two tori; threefold-symmetric patterns called Mercedes, Mitsubishi, marigold, and cloverleaf; trigonometric patterns called dipole and pizza; and less symmetric patterns called CO and asymmetric three rolls. The convective branches are connected to the conductive state and to each other by 16 primary and secondary pitchfork bifurcations and turning points. In order to better understand this complicated bifurcation diagram, we have partitioned it according to azimuthal symmetry. We have been able to determine the bifurcation-theoretic origin from the conductive state of all the branches observed at high Rayleigh number.

  12. Ab-intio study of phonon and thermodynamic properties of Znic-blende ZnSe

    NASA Astrophysics Data System (ADS)

    Khatta, Swati; Kaur, Veerpal; Tripathi, S. K.; Prakash, Satya

    2018-04-01

    The Phonon and thermodynamic properties of ZnSe are investigated using density functional perturbation theory (DFPT) and quasi-harmonic approximation (QHA) implemented in Quantum espresso code. The phonon dispersion curve and phonon density of states of ZnSe are obtained. It is shown that high symmetries D→X and D→L directions, there are four branches of dispersion curves which split into six branches along the X→W, W→X and X→D directions. The LO-TO splitting frequencies (in cm-1) at the zone center (D point) are LO=255 and TO=215. The total and partial phonon density of states is used to compute the entropy and specific heat capacity of ZnSe. The computed values are in reasonable agreement with experimental data and other with available theoretical calculations.

  13. Evaluation of candidate working fluid formulations for the electrothermal-chemical wind tunnel

    NASA Technical Reports Server (NTRS)

    Akyurtlu, Jale F.; Akyurtlu, Ates

    1993-01-01

    A new hypersonic test facility which can simulate conditions typical of atmospheric flight at Mach numbers up to 20 is currently under study at the NASA/LaRC Hypersonic Propulsion Branch. In the proposed research, it was suggested that a combustion augmented electrothermal wind tunnel concept may be applied to the planned hypersonic testing facility. The purpose of the current investigation is to evaluate some candidate working fluid formulations which may be used in the chemical-electrothermal wind. The efforts in the initial phase of this research were concentrated on acquiring the code used by GASL to model the electrothermal wind tunnel and testing it using the conditions of GASL simulation. The early version of the general chemical kinetics code (GCKP84) was obtained from NASA and the latest updated version of the code (LSENS) was obtained from the author Dr. Bittker. Both codes are installed on a personal computer with a 486 25 MHz processor and 16 Mbyte RAM. Since the available memory was not sufficient to debug LSENS, for the current work GCKP84 was used.

  14. Neural network technologies

    NASA Technical Reports Server (NTRS)

    Villarreal, James A.

    1991-01-01

    A whole new arena of computer technologies is now beginning to form. Still in its infancy, neural network technology is a biologically inspired methodology which draws on nature's own cognitive processes. The Software Technology Branch has provided a software tool, Neural Execution and Training System (NETS), to industry, government, and academia to facilitate and expedite the use of this technology. NETS is written in the C programming language and can be executed on a variety of machines. Once a network has been debugged, NETS can produce a C source code which implements the network. This code can then be incorporated into other software systems. Described here are various software projects currently under development with NETS and the anticipated future enhancements to NETS and the technology.

  15. Deception Detection Process and Accuracy: An Examination of How U.S. Military Officers Detect Deception in the Workplace

    DTIC Science & Technology

    2014-12-01

    honest interview was selected by matching on sex , race, and approximate physical appearance. Thus, there were two honest non-cheaters and two lying...sister, mom , dad), peer/friend, teacher/caregiver, senior in rank (but no command relationship), and other. Relationship coding resulted in a Kappa of...fill in the blank): Sex : Male Female Age: ________ Years of Military Service: _______ Rank:____________ Branch (circle one): Army

  16. Description and Evaluation of GDEM-V 3.0

    DTIC Science & Technology

    2009-02-06

    Description and Evaluation of GDEM -V 3.0 Michael R. caRnes Ocean Sciences Branch Oceanography Division February 6, 2009 i REPORT DOCUMENTATION PAGE Form...include area code) b. ABSTRACT c. THIS PAGE 18. NUMBER OF PAGES 17. LIMITATION OF ABSTRACT Description and Evaluation of GDEM -V 3.0 Michael R. Carnes...unlimited. Unclassified Unclassified Unclassified UL 24 Michael R. Carnes (228) 688-5648 The GDEM (Generalized Digital Environment Model) has served as

  17. Draft Genome Sequence of d-Branched-Chain Amino Acid Producer Lactobacillus otakiensis JCM 15040T, Isolated from a Traditional Japanese Pickle

    PubMed Central

    Mori, Kazuki; Mutaguchi, Yuta; Tashiro, Kosuke; Fujino, Yasuhiro; Ohmori, Taketo; Kuhara, Satoru; Ohshima, Toshihisa

    2013-01-01

    Lactobacillus otakiensis strain JCM 15040T was isolated from an unsalted pickling solution used in the production of sunki, a traditional Japanese pickle. Here, we prepared a draft genome sequence for this strain consisting of 40 contigs containing a total of 2,347,132 bp, 2,310 predicted coding sequences, and a G+C content of 42.4%. PMID:23929467

  18. The Shock and Vibration Digest, Volume 17, Number 10

    DTIC Science & Technology

    1985-10-01

    Venkayya, V.B. and Tischler, V.A., 49. Calico , R.A., Jr. and Tnyfault, D.V., "Frequency Control and the Effect on the "Decoupled Large Space Structure...Hurwitz presented. The threshold concept is de- Numerical Structural Mechanics scribed, as are receiver operating charac- Branch (Code 1844 ) teristic...Part Vibration and Dynamics of Off Road Vehi- 2 - Realistic Complex Elements des M. Apetaur I.A. Craighead, P.R. Brown Prague Univ. of Tech

  19. Software Management Environment (SME) installation guide

    NASA Technical Reports Server (NTRS)

    Kistler, David; Jeletic, Kellyann

    1992-01-01

    This document contains installation information for the Software Management Environment (SME), developed for the Systems Development Branch (Code 552) of the Flight Dynamics Division of Goddard Space Flight Center (GSFC). The SME provides an integrated set of management tools that can be used by software development managers in their day-to-day management and planning activities. This document provides a list of hardware and software requirements as well as detailed installation instructions and trouble-shooting information.

  20. Three-dimensional steady flow computations in manifold-type junctions and a comparison with experiment

    NASA Astrophysics Data System (ADS)

    Kuo, Tang-Wei; Chang, Shengming

    Results of three-dimensional steady flow calculations are compared with existing pressure and velocity measurements of two manifold-type junctions. The junctions consist of a main duct and a side branch, both with the same rectangular cross section, with the side branch joining the main duct at an angle of either 90 or 45 degrees. Both combining and dividing flow configurations are considered for different total mass flow rates and different side-branch-to-main-duct mass flow ratios. One objective of this investigation was to assess the effects of numerical differencing scheme and mesh refinement on solution accuracy, and both parameters showed strong influences on the computed results. It is shown that calculations should be made with the highest possible level of numerical accuracy and grid resolution in regions of flow recirculation. Comparisons of computed and measured velocities, static pressures, and flow loss coefficients are presented in this paper. For most cases considered, the model predictions are in good agreement with the measurements. Results can be used as input loss coefficients to an engine-simulation code, in addition to being used to evaluate a specific junction design.

  1. Generalized Fluid System Simulation Program, Version 5.0-Educational. Supplemental Information for NASA/TM-2011-216470. Supplement

    NASA Technical Reports Server (NTRS)

    Majumdar, A. K.

    2011-01-01

    The Generalized Fluid System Simulation Program (GFSSP) is a finite-volume based general-purpose computer program for analyzing steady state and time-dependent flow rates, pressures, temperatures, and concentrations in a complex flow network. The program is capable of modeling real fluids with phase changes, compressibility, mixture thermodynamics, conjugate heat transfer between solid and fluid, fluid transients, pumps, compressors and external body forces such as gravity and centrifugal. The thermofluid system to be analyzed is discretized into nodes, branches, and conductors. The scalar properties such as pressure, temperature, and concentrations are calculated at nodes. Mass flow rates and heat transfer rates are computed in branches and conductors. The graphical user interface allows users to build their models using the point, drag and click method; the users can also run their models and post-process the results in the same environment. The integrated fluid library supplies thermodynamic and thermo-physical properties of 36 fluids and 21 different resistance/source options are provided for modeling momentum sources or sinks in the branches. This Technical Memorandum illustrates the application and verification of the code through 12 demonstrated example problems. This supplement gives the input and output data files for the examples.

  2. Multidisciplinary Optimization Branch Experience Using iSIGHT Software

    NASA Technical Reports Server (NTRS)

    Padula, S. L.; Korte, J. J.; Dunn, H. J.; Salas, A. O.

    1999-01-01

    The Multidisciplinary Optimization (MDO) Branch at NASA Langley is investigating frameworks for supporting multidisciplinary analysis and optimization research. A framework provides software and system services to integrate computational tasks and allows the researcher to concentrate more on the application and less on the programming details. A framework also provides a common working environment and a full range of optimization tools, and so increases the productivity of multidisciplinary research teams. Finally, a framework enables staff members to develop applications for use by disciplinary experts in other organizations. This year, the MDO Branch has gained experience with the iSIGHT framework. This paper describes experiences with four aerospace applications, including: (1) reusable launch vehicle sizing, (2) aerospike nozzle design, (3) low-noise rotorcraft trajectories, and (4) acoustic liner design. Brief overviews of each problem are provided, including the number and type of disciplinary codes and computation time estimates. In addition, the optimization methods, objective functions, design variables, and constraints are described for each problem. For each case, discussions on the advantages and disadvantages of using the iSIGHT framework are provided as well as notes on the ease of use of various advanced features and suggestions for areas of improvement.

  3. Multiplexed Detection of Cytokines Based on Dual Bar-Code Strategy and Single-Molecule Counting.

    PubMed

    Li, Wei; Jiang, Wei; Dai, Shuang; Wang, Lei

    2016-02-02

    Cytokines play important roles in the immune system and have been regarded as biomarkers. While single cytokine is not specific and accurate enough to meet the strict diagnosis in practice, in this work, we constructed a multiplexed detection method for cytokines based on dual bar-code strategy and single-molecule counting. Taking interferon-γ (IFN-γ) and tumor necrosis factor-α (TNF-α) as model analytes, first, the magnetic nanobead was functionalized with the second antibody and primary bar-code strands, forming a magnetic nanoprobe. Then, through the specific reaction of the second antibody and the antigen that fixed by the primary antibody, sandwich-type immunocomplex was formed on the substrate. Next, the primary bar-code strands as amplification units triggered multibranched hybridization chain reaction (mHCR), producing nicked double-stranded polymers with multiple branched arms, which were served as secondary bar-code strands. Finally, the secondary bar-code strands hybridized with the multimolecule labeled fluorescence probes, generating enhanced fluorescence signals. The numbers of fluorescence dots were counted one by one for quantification with epi-fluorescence microscope. By integrating the primary and secondary bar-code-based amplification strategy and the multimolecule labeled fluorescence probes, this method displayed an excellent sensitivity with the detection limits were both 5 fM. Unlike the typical bar-code assay that the bar-code strands should be released and identified on a microarray, this method is more direct. Moreover, because of the selective immune reaction and the dual bar-code mechanism, the resulting method could detect the two targets simultaneously. Multiple analysis in human serum was also performed, suggesting that our strategy was reliable and had a great potential application in early clinical diagnosis.

  4. A novel use of QR code stickers after orthopaedic cast application.

    PubMed

    Gough, A T; Fieraru, G; Gaffney, Pav; Butler, M; Kincaid, R J; Middleton, R G

    2017-07-01

    INTRODUCTION We present a novel solution to ensure that information and contact details are always available to patients while in cast. An information sticker containing both telephone numbers and a Quick Response (QR) code is applied to the cast. When scanned with a smartphone, the QR code loads the plaster team's webpage. This contains information and videos about cast care, complications and enhancing recovery. METHODS A sticker was designed and applied to all synthetic casts fitted in our fracture clinic. On cast removal, patients completed a questionnaire about the sticker. A total of 101 patients were surveyed between November 2015 and February 2016. The questionnaire comprised ten binary choice questions. RESULTS The vast majority (97%) of patients had the sticker still on their cast when they returned to clinic for cast removal. Eighty-four per cent of all patients felt reassured by the presence of the QR code sticker. Nine per cent used the contact details on the cast to seek advice. Over half (56%) had a smartphone and a third (33%) of these scanned the QR code. Of those who scanned the code, 95% found the information useful. CONCLUSIONS This study indicates that use of a QR code reassures patients and is an effective tool in the proactive management of potential cast problems. The QR code sticker is now applied to all casts across our trust. In line with NHS England's Five Year Forward View calling for enhanced use of smartphone technology, our trust is continuing to expand its portfolio of patient information accessible via QR codes. Other branches of medicine may benefit from incorporating QR codes as portals to access such information.

  5. Expression and functional analyses of a Kinesin gene GhKIS13A1 from cotton (Gossypium hirsutum) fiber.

    PubMed

    Li, Yan-Jun; Zhu, Shou-Hong; Zhang, Xin-Yu; Liu, Yong-Chang; Xue, Fei; Zhao, Lan-Jie; Sun, Jie

    2017-06-12

    Cotton fiber, a natural fiber widely used in the textile industry, is differentiated from single cell of ovule epidermis. A large number of genes are believed to be involved in fiber formation, but so far only a few fiber genes have been isolated and functionally characterized in this developmental process. The Kinesin13 subfamily was found to play key roles during cell division and cell elongation, and was considered to be involved in the regulation of cotton fiber development. The full length of coding sequence of GhKIS13A1 was cloned using cDNA from cotton fiber for functional characterization. Expression pattern analysis showed that GhKIS13A1 maintained a lower expression level during cotton fiber development. Biochemical assay showed that GhKIS13A1 has microtubule binding activity and basal ATPase activity that can be activated significantly by the presence of microtubules. Overexpression of GhKIS13A1 in Arabidopsis reduced leaf trichomes and the percentage of three-branch trichomes, and increased two-branch and shriveled trichomes compared to wild-type. Additionally, the expression of GhKIS13A1 in the Arabidopsis Kinesin-13a-1 mutant rescued the defective trichome branching pattern of the mutant, making its overall trichome branching pattern back to normal. Our results suggested that GhKIS13A1 is functionally compatible with AtKinesin-13A regarding their role in regulating the number and branching pattern of leaf trichomes. Given the developmental similarities between cotton fibers and Arabidopsis trichomes, it is speculated that GhKIS13A1 may also be involved in the regulation of cotton fiber development.

  6. Particle-in-cell simulations with charge-conserving current deposition on graphic processing units

    NASA Astrophysics Data System (ADS)

    Ren, Chuang; Kong, Xianglong; Huang, Michael; Decyk, Viktor; Mori, Warren

    2011-10-01

    Recently using CUDA, we have developed an electromagnetic Particle-in-Cell (PIC) code with charge-conserving current deposition for Nvidia graphic processing units (GPU's) (Kong et al., Journal of Computational Physics 230, 1676 (2011). On a Tesla M2050 (Fermi) card, the GPU PIC code can achieve a one-particle-step process time of 1.2 - 3.2 ns in 2D and 2.3 - 7.2 ns in 3D, depending on plasma temperatures. In this talk we will discuss novel algorithms for GPU-PIC including charge-conserving current deposition scheme with few branching and parallel particle sorting. These algorithms have made efficient use of the GPU shared memory. We will also discuss how to replace the computation kernels of existing parallel CPU codes while keeping their parallel structures. This work was supported by U.S. Department of Energy under Grant Nos. DE-FG02-06ER54879 and DE-FC02-04ER54789 and by NSF under Grant Nos. PHY-0903797 and CCF-0747324.

  7. Supercomputer description of human lung morphology for imaging analysis.

    PubMed

    Martonen, T B; Hwang, D; Guan, X; Fleming, J S

    1998-04-01

    A supercomputer code that describes the three-dimensional branching structure of the human lung has been developed. The algorithm was written for the Cray C94. In our simulations, the human lung was divided into a matrix containing discrete volumes (voxels) so as to be compatible with analyses of SPECT images. The matrix has 3840 voxels. The matrix can be segmented into transverse, sagittal and coronal layers analogous to human subject examinations. The compositions of individual voxels were identified by the type and respective number of airways present. The code provides a mapping of the spatial positions of the almost 17 million airways in human lungs and unambiguously assigns each airway to a voxel. Thus, the clinician and research scientist in the medical arena have a powerful new tool to be used in imaging analyses. The code was designed to be integrated into diverse applications, including the interpretation of SPECT images, the design of inhalation exposure experiments and the targeted delivery of inhaled pharmacologic drugs.

  8. ACSYNT - A standards-based system for parametric, computer aided conceptual design of aircraft

    NASA Technical Reports Server (NTRS)

    Jayaram, S.; Myklebust, A.; Gelhausen, P.

    1992-01-01

    A group of eight US aerospace companies together with several NASA and NAVY centers, led by NASA Ames Systems Analysis Branch, and Virginia Tech's CAD Laboratory agreed, through the assistance of Americal Technology Initiative, in 1990 to form the ACSYNT (Aircraft Synthesis) Institute. The Institute is supported by a Joint Sponsored Research Agreement to continue the research and development in computer aided conceptual design of aircraft initiated by NASA Ames Research Center and Virginia Tech's CAD Laboratory. The result of this collaboration, a feature-based, parametric computer aided aircraft conceptual design code called ACSYNT, is described. The code is based on analysis routines begun at NASA Ames in the early 1970's. ACSYNT's CAD system is based entirely on the ISO standard Programmer's Hierarchical Interactive Graphics System and is graphics-device independent. The code includes a highly interactive graphical user interface, automatically generated Hermite and B-Spline surface models, and shaded image displays. Numerous features to enhance aircraft conceptual design are described.

  9. Dual-broadband rotational CARS modelling of nitrogen at pressures up to 9 MPa. II. Rotational Raman line widths

    NASA Astrophysics Data System (ADS)

    Afzelius, M.; Bengtsson, P.-E.; Bood, J.; Bonamy, J.; Chaussard, F.; Berger, H.; Dreier, T.

    Rotational coherent anti-Stokes Raman spectroscopy (CARS) is a well-established spectroscopic technique for thermometry at pre-combustion temperatures and atmospheric pressure. However, at pressures of several MPa, a previous investigation revealed large discrepancies between experimental data and the theoretical model. A re-evaluation has been made of these data (at room temperature and in the range 1.5-9 MPa) with two improvements to the spectral code. The first is the inclusion of an inter-branch interference effect, which is described in detail in Paper I. The second is the use of experimental S1-branch Raman line widths measured at 295 K, with a temperature dependence extracted from semi-classical calculations following the Robert-Bonamy formalism. It is shown that these two modifications significantly improve the theoretical model, since both the spectral fits and the accuracy of the evaluated temperatures are considerably improved.

  10. Sequence of the non-phosphorylating glyceraldehyde-3-phosphate dehydrogenase from Nicotiana plumbaginifolia and phylogenetic origin of the gene family.

    PubMed

    Habenicht, A; Quesada, A; Cerff, R

    1997-10-01

    A cDNA-library has been constructed from Nicotiana plumbaginifolia seedlings, and the non-phosphorylating glyceraldehyde-3-phosphate dehydrogenase (GapN, EC 1.2.1.9) was isolated by plaque hybridization using the cDNA from pea as a heterologous probe. The cDNA comprises the entire GapN coding region. A putative polyadenylation signal is identified. Phylogenetic analysis based on the deduced amino acid sequences revealed that the GapN gene family represents a separate ancient branch within the aldehyde dehydrogenase superfamily. It can be shown that the GapN gene family and other distinct branches of the superfamily have its phylogenetic origin before the separation of primary life-forms. This further demonstrates that already very early in evolution, a broad diversification of the aldehyde dehydrogenases led to the formation of the superfamily.

  11. Common Ada Missile Packages. Phase 2. (CAMP-2). Volume 2. 11th Missile Demonstration

    DTIC Science & Technology

    1988-11-01

    report describes the work performed, Ihe results obtained, and the conclusions reached during the Common Ada Missile Packages Phase-2 (CAMP-2) contract ... contract was performed between Sep- tember 1985. and March 1988. The MDAC-STL CAMP program manager was: Dr. Daniel G. McNicholl Technology Branch...j DEC Code Management System X X Software Development Files x x Development Status Database x ! X i Smart Cade Counter X j

  12. Wide Dynamic Range Array Detector for Absorbance and Rotation Spectrometry.

    DTIC Science & Technology

    1983-07-05

    target tube (SIT) is used. With the SIT, as with the PMT, the sensitivity and spectral response are dependent on the choice of photocathode material ...refer to the same material under the same conditions. Figure 3 is a block diagram of the optical setup as configured for measurement of optical rotation...21401 Research Triangle Park, N.C. 27709 1 Mr. John Boyle Mr. Vincent Schaper Materials Branch DTNSRDC Code 2803 Naval Ship Engineering Center Annapolis

  13. Euglena gracilis chloroplast DNA: analysis of a 1.6 kb intron of the psb C gene containing an open reading frame of 458 codons.

    PubMed

    Montandon, P E; Vasserot, A; Stutz, E

    1986-01-01

    We retrieved a 1.6 kbp intron separating two exons of the psb C gene which codes for the 44 kDa reaction center protein of photosystem II. This intron is 3 to 4 times the size of all previously sequenced Euglena gracilis chloroplast introns. It contains an open reading frame of 458 codons potentially coding for a basic protein of 54 kDa of yet unknown function. The intron boundaries follow consensus sequences established for chloroplast introns related to class II and nuclear pre-mRNA introns. Its 3'-terminal segment has structural features similar to class II mitochondrial introns with an invariant base A as possible branch point for lariat formation.

  14. Distributed intelligent control and status networking

    NASA Technical Reports Server (NTRS)

    Fortin, Andre; Patel, Manoj

    1993-01-01

    Over the past two years, the Network Control Systems Branch (Code 532) has been investigating control and status networking technologies. These emerging technologies use distributed processing over a network to accomplish a particular custom task. These networks consist of small intelligent 'nodes' that perform simple tasks. Containing simple, inexpensive hardware and software, these nodes can be easily developed and maintained. Once networked, the nodes can perform a complex operation without a central host. This type of system provides an alternative to more complex control and status systems which require a central computer. This paper will provide some background and discuss some applications of this technology. It will also demonstrate the suitability of one particular technology for the Space Network (SN) and discuss the prototyping activities of Code 532 utilizing this technology.

  15. Implementation of Finite Volume based Navier Stokes Algorithm Within General Purpose Flow Network Code

    NASA Technical Reports Server (NTRS)

    Schallhorn, Paul; Majumdar, Alok

    2012-01-01

    This paper describes a finite volume based numerical algorithm that allows multi-dimensional computation of fluid flow within a system level network flow analysis. There are several thermo-fluid engineering problems where higher fidelity solutions are needed that are not within the capacity of system level codes. The proposed algorithm will allow NASA's Generalized Fluid System Simulation Program (GFSSP) to perform multi-dimensional flow calculation within the framework of GFSSP s typical system level flow network consisting of fluid nodes and branches. The paper presents several classical two-dimensional fluid dynamics problems that have been solved by GFSSP's multi-dimensional flow solver. The numerical solutions are compared with the analytical and benchmark solution of Poiseulle, Couette and flow in a driven cavity.

  16. Developing Avionics Hardware and Software for Rocket Engine Testing

    NASA Technical Reports Server (NTRS)

    Aberg, Bryce Robert

    2014-01-01

    My summer was spent working as an intern at Kennedy Space Center in the Propulsion Avionics Branch of the NASA Engineering Directorate Avionics Division. The work that I was involved with was part of Rocket University's Project Neo, a small scale liquid rocket engine test bed. I began by learning about the layout of Neo in order to more fully understand what was required of me. I then developed software in LabView to gather and scale data from two flowmeters and integrated that code into the main control software. Next, I developed more LabView code to control an igniter circuit and integrated that into the main software, as well. Throughout the internship, I performed work that mechanics and technicians would do in order to maintain and assemble the engine.

  17. Physics of cosmological cascades and observable properties

    NASA Astrophysics Data System (ADS)

    Fitoussi, T.; Belmont, R.; Malzac, J.; Marcowith, A.; Cohen-Tanugi, J.; Jean, P.

    2017-04-01

    TeV photons from extragalactic sources are absorbed in the intergalactic medium and initiate electromagnetic cascades. These cascades offer a unique tool to probe the properties of the universe at cosmological scales. We present a new Monte Carlo code dedicated to the physics of such cascades. This code has been tested against both published results and analytical approximations, and is made publicly available. Using this numerical tool, we investigate the main cascade properties (spectrum, halo extension and time delays), and study in detail their dependence on the physical parameters (extragalactic magnetic field, extragalactic background light, source redshift, source spectrum and beaming emission). The limitations of analytical solutions are emphasized. In particular, analytical approximations account only for the first generation of photons and higher branches of the cascade tree are neglected.

  18. A coupled surface-water and ground-water flow model (MODBRANCH) for simulation of stream-aquifer interaction

    USGS Publications Warehouse

    Swain, Eric D.; Wexler, Eliezer J.

    1996-01-01

    Ground-water and surface-water flow models traditionally have been developed separately, with interaction between subsurface flow and streamflow either not simulated at all or accounted for by simple formulations. In areas with dynamic and hydraulically well-connected ground-water and surface-water systems, stream-aquifer interaction should be simulated using deterministic responses of both systems coupled at the stream-aquifer interface. Accordingly, a new coupled ground-water and surface-water model was developed by combining the U.S. Geological Survey models MODFLOW and BRANCH; the interfacing code is referred to as MODBRANCH. MODFLOW is the widely used modular three-dimensional, finite-difference ground-water model, and BRANCH is a one-dimensional numerical model commonly used to simulate unsteady flow in open- channel networks. MODFLOW was originally written with the River package, which calculates leakage between the aquifer and stream, assuming that the stream's stage remains constant during one model stress period. A simple streamflow routing model has been added to MODFLOW, but is limited to steady flow in rectangular, prismatic channels. To overcome these limitations, the BRANCH model, which simulates unsteady, nonuniform flow by solving the St. Venant equations, was restructured and incorporated into MODFLOW. Terms that describe leakage between stream and aquifer as a function of streambed conductance and differences in aquifer and stream stage were added to the continuity equation in BRANCH. Thus, leakage between the aquifer and stream can be calculated separately in each model, or leakages calculated in BRANCH can be used in MODFLOW. Total mass in the coupled models is accounted for and conserved. The BRANCH model calculates new stream stages for each time interval in a transient simulation based on upstream boundary conditions, stream properties, and initial estimates of aquifer heads. Next, aquifer heads are calculated in MODFLOW based on stream stages calculated by BRANCH, aquifer properties, and stresses. This process is repeated until convergence criteria are met for head and stage. Because time steps used in ground-water modeling can be much longer than time intervals used in surface- water simulations, provision has been made for handling multiple BRANCH time intervals within one MODFLOW time step. An option was also added to BRANCH to allow the simulation of channel drying and rewetting. Testing of the coupled model was verified by using data from previous studies; by comparing results with output from a simpler, four-point implicit, open-channel flow model linked with MODFLOW; and by comparison to field studies of L-31N canal in southern Florida.

  19. Proceedings of the Environmental Research and Development (R&D) technical Workshop Held in San Diego, California on 7-9 November 1989

    DTIC Science & Technology

    1990-06-01

    Released by Under authority of P. F. Seligman , Head S. Yamamoto, Head Marine Environment Branch Environmental Sciences Division NOTE: The front cover...168 ENVIRONMENT Peter F. Seligman Code 522, NOSC San Diego, CA 92152-5000 AUTOVON 553-2778, (619) 553-2778 IL 99 DEVELOPMENT OF INNOVATIVE...hour monitoring tests. The suggested ad- ditions will be implemented in version 3.9 as funding permits. REFERENCES 1. Clavell, C., Seligman , P. F, and

  20. Draft Genome Sequence of Curtobacterium sp. Strain ER1/6, an Endophytic Strain Isolated from Citrus sinensis with Potential To Be Used as a Biocontrol Agent.

    PubMed

    Garrido, Leandro Maza; Alves, João Marcelo Pereira; Oliveira, Liliane Santana; Gruber, Arthur; Padilla, Gabriel; Araújo, Welington Luiz

    2016-11-17

    Herein, we report a draft genome sequence of the endophytic Curtobacterium sp. strain ER1/6, isolated from a surface-sterilized Citrus sinensis branch, and it presented the capability to control phytopathogens. Functional annotation of the ~3.4-Mb genome revealed 3,100 protein-coding genes, with many products related to known ecological and biotechnological aspects of this bacterium. Copyright © 2016 Garrido et al.

  1. Effect of the Army Oral Health Maintenance Program on the Dental Health Status of Army Personnel (AOHMP Evaluation) Executive Summary

    DTIC Science & Technology

    1979-06-01

    dental care requirements and the amount of dental care received by US Army active duty populations according to rank group, basic career management...investigators there was no disruption of care during this phase of the study effort. c. Data Collection Procedures. (1) Initial Examination. The basic ...SN. C. .(I) Pst D. Unit (2) Dental Clinic where record ftiled COLUMN E. Rank (see code sheet) ŔO F. Basic Branch/Career Management Field/Type of

  2. Software Management Environment (SME) release 9.4 user reference material

    NASA Technical Reports Server (NTRS)

    Hendrick, R.; Kistler, D.; Manter, K.

    1992-01-01

    This document contains user reference material for the Software Management Environment (SME) prototype, developed for the Systems Development Branch (Code 552) of the Flight Dynamics Division (FDD) of Goddard Space Flight Center (GSFC). The SME provides an integrated set of management tools that can be used by software development managers in their day-to-day management and planning activities. This document provides an overview of the SME, a description of all functions, and detailed instructions concerning the software's installation and use.

  3. Precipitating Auroral Electron Flux Characteristics Based on UV Data Obtained by the AIRS Experiment Onboard the Polar BEAR Satellite

    DTIC Science & Technology

    1992-03-01

    approved for publication. RICHARD EASTES DAVID ANDERSON Contract Manager Branch Chief "" K. VICKERY Division Director This document has been reviewed by...Contract Manager: Richard Eastes/GPIM 11. SUPPLEMENTARY NOTES 12a. DISTRIBUTION /AVAILABILITY STATEMENT 12b. DISTRIBUTION CODE Approved for public...system within this band ( Vallance Jones, 1974) 4.2 Model atmosphere MSIS86 (Hedin, 1987) was used to generate the model atmospheres for our analysis of

  4. Structural-Thermal-Optical-Performance (STOP) Analysis

    NASA Technical Reports Server (NTRS)

    Bolognese, Jeffrey; Irish, Sandra

    2015-01-01

    The presentation will be given at the 26th Annual Thermal Fluids Analysis Workshop (TFAWS 2015) hosted by the Goddard Spaceflight Center (GSFC) Thermal Engineering Branch (Code 545). A STOP analysis is a multidiscipline analysis, consisting of Structural, Thermal and Optical Performance Analyses, that is performed for all space flight instruments and satellites. This course will explain the different parts of performing this analysis. The student will learn how to effectively interact with each discipline in order to accurately obtain the system analysis results.

  5. Good Trellises for IC Implementation of Viterbi Decoders for Linear Block Codes

    NASA Technical Reports Server (NTRS)

    Moorthy, Hari T.; Lin, Shu; Uehara, Gregory T.

    1997-01-01

    This paper investigates trellis structures of linear block codes for the integrated circuit (IC) implementation of Viterbi decoders capable of achieving high decoding speed while satisfying a constraint on the structural complexity of the trellis in terms of the maximum number of states at any particular depth. Only uniform sectionalizations of the code trellis diagram are considered. An upper-bound on the number of parallel and structurally identical (or isomorphic) subtrellises in a proper trellis for a code without exceeding the maximum state complexity of the minimal trellis of the code is first derived. Parallel structures of trellises with various section lengths for binary BCH and Reed-Muller (RM) codes of lengths 32 and 64 are analyzed. Next, the complexity of IC implementation of a Viterbi decoder based on an L-section trellis diagram for a code is investigated. A structural property of a Viterbi decoder called add-compare-select (ACS)-connectivity which is related to state connectivity is introduced. This parameter affects the complexity of wire-routing (interconnections within the IC). The effect of five parameters namely: (1) effective computational complexity; (2) complexity of the ACS-circuit; (3) traceback complexity; (4) ACS-connectivity; and (5) branch complexity of a trellis diagram on the very large scale integration (VISI) complexity of a Viterbi decoder is investigated. It is shown that an IC implementation of a Viterbi decoder based on a nonminimal trellis requires less area and is capable of operation at higher speed than one based on the minimal trellis when the commonly used ACS-array architecture is considered.

  6. Good trellises for IC implementation of viterbi decoders for linear block codes

    NASA Technical Reports Server (NTRS)

    Lin, Shu; Moorthy, Hari T.; Uehara, Gregory T.

    1996-01-01

    This paper investigates trellis structures of linear block codes for the IC (integrated circuit) implementation of Viterbi decoders capable of achieving high decoding speed while satisfying a constraint on the structural complexity of the trellis in terms of the maximum number of states at any particular depth. Only uniform sectionalizations of the code trellis diagram are considered. An upper bound on the number of parallel and structurally identical (or isomorphic) subtrellises in a proper trellis for a code without exceeding the maximum state complexity of the minimal trellis of the code is first derived. Parallel structures of trellises with various section lengths for binary BCH and Reed-Muller (RM) codes of lengths 32 and 64 are analyzed. Next, the complexity of IC implementation of a Viterbi decoder based on an L-section trellis diagram for a code is investigated. A structural property of a Viterbi decoder called ACS-connectivity which is related to state connectivity is introduced. This parameter affects the complexity of wire-routing (interconnections within the IC). The effect of five parameters namely: (1) effective computational complexity; (2) complexity of the ACS-circuit; (3) traceback complexity; (4) ACS-connectivity; and (5) branch complexity of a trellis diagram on the VLSI complexity of a Viterbi decoder is investigated. It is shown that an IC implementation of a Viterbi decoder based on a non-minimal trellis requires less area and is capable of operation at higher speed than one based on the minimal trellis when the commonly used ACS-array architecture is considered.

  7. Dinoflagellate phylogeny revisited: Using ribosomal proteins to resolve deep branching dinoflagellate clades

    PubMed Central

    Bachvaroff, Tsvetan R.; Gornik, Sebastian G.; Concepcion, Gregory T.; Waller, Ross F.; Mendez, Gregory S.; Lippmeier, J. Casey; Delwiche, Charles F.

    2014-01-01

    The alveolates are composed of three major lineages, the ciliates, dinoflagellates, and apicomplexans. Together these ‘protist’ taxa play key roles in primary production and ecology, as well as in illness of humans and other animals. The interface between the dinoflagellate and apicomplexan clades has been an area of recent discovery, blurring the distinction between these two clades. Moreover, phylogenetic analysis has yet to determine the position of basal dinoflagellate clades hence the deepest branches of the dinoflagellate tree currently remain unresolved. Large-scale mRNA sequencing was applied to 11 species of dinoflagellates, including strains of the syndinean genera Hematodinium and Amoebophrya, parasites of crustaceans and dinoflagellates, respectively, to optimize and update the dinoflagellate tree. From the transcriptome-scale data a total of 73 ribosomal protein-coding genes were selected for phylogeny. After individual gene orthology assessment, the genes were concatenated into a >15,000 amino acid alignment with 76 taxa from dinoflagellates, apicomplexans, ciliates, and the outgroup heterokonts. Overall the tree was well resolved and supported, when the data was subsampled with gblocks or constraint trees were tested with the approximately unbiased test. The deepest branches of the dinoflagellate tree can now be resolved with strong support, and provides a clearer view of the evolution of the distinctive traits of dinoflagellates. PMID:24135237

  8. A Bayesian phylogenetic study of the Dravidian language family

    PubMed Central

    Kolipakam, Vishnupriya

    2018-01-01

    The Dravidian language family consists of about 80 varieties (Hammarström H. 2016 Glottolog 2.7) spoken by 220 million people across southern and central India and surrounding countries (Steever SB. 1998 In The Dravidian languages (ed. SB Steever), pp. 1–39: 1). Neither the geographical origin of the Dravidian language homeland nor its exact dispersal through time are known. The history of these languages is crucial for understanding prehistory in Eurasia, because despite their current restricted range, these languages played a significant role in influencing other language groups including Indo-Aryan (Indo-European) and Munda (Austroasiatic) speakers. Here, we report the results of a Bayesian phylogenetic analysis of cognate-coded lexical data, elicited first hand from native speakers, to investigate the subgrouping of the Dravidian language family, and provide dates for the major points of diversification. Our results indicate that the Dravidian language family is approximately 4500 years old, a finding that corresponds well with earlier linguistic and archaeological studies. The main branches of the Dravidian language family (North, Central, South I, South II) are recovered, although the placement of languages within these main branches diverges from previous classifications. We find considerable uncertainty with regard to the relationships between the main branches. PMID:29657761

  9. Targeting multiple heterogeneous hardware platforms with OpenCL

    NASA Astrophysics Data System (ADS)

    Fox, Paul A.; Kozacik, Stephen T.; Humphrey, John R.; Paolini, Aaron; Kuller, Aryeh; Kelmelis, Eric J.

    2014-06-01

    The OpenCL API allows for the abstract expression of parallel, heterogeneous computing, but hardware implementations have substantial implementation differences. The abstractions provided by the OpenCL API are often insufficiently high-level to conceal differences in hardware architecture. Additionally, implementations often do not take advantage of potential performance gains from certain features due to hardware limitations and other factors. These factors make it challenging to produce code that is portable in practice, resulting in much OpenCL code being duplicated for each hardware platform being targeted. This duplication of effort offsets the principal advantage of OpenCL: portability. The use of certain coding practices can mitigate this problem, allowing a common code base to be adapted to perform well across a wide range of hardware platforms. To this end, we explore some general practices for producing performant code that are effective across platforms. Additionally, we explore some ways of modularizing code to enable optional optimizations that take advantage of hardware-specific characteristics. The minimum requirement for portability implies avoiding the use of OpenCL features that are optional, not widely implemented, poorly implemented, or missing in major implementations. Exposing multiple levels of parallelism allows hardware to take advantage of the types of parallelism it supports, from the task level down to explicit vector operations. Static optimizations and branch elimination in device code help the platform compiler to effectively optimize programs. Modularization of some code is important to allow operations to be chosen for performance on target hardware. Optional subroutines exploiting explicit memory locality allow for different memory hierarchies to be exploited for maximum performance. The C preprocessor and JIT compilation using the OpenCL runtime can be used to enable some of these techniques, as well as to factor in hardware-specific optimizations as necessary.

  10. Quantum image pseudocolor coding based on the density-stratified method

    NASA Astrophysics Data System (ADS)

    Jiang, Nan; Wu, Wenya; Wang, Luo; Zhao, Na

    2015-05-01

    Pseudocolor processing is a branch of image enhancement. It dyes grayscale images to color images to make the images more beautiful or to highlight some parts on the images. This paper proposes a quantum image pseudocolor coding scheme based on the density-stratified method which defines a colormap and changes the density value from gray to color parallel according to the colormap. Firstly, two data structures: quantum image GQIR and quantum colormap QCR are reviewed or proposed. Then, the quantum density-stratified algorithm is presented. Based on them, the quantum realization in the form of circuits is given. The main advantages of the quantum version for pseudocolor processing over the classical approach are that it needs less memory and can speed up the computation. Two kinds of examples help us to describe the scheme further. Finally, the future work are analyzed.

  11. Development of N-version software samples for an experiment in software fault tolerance

    NASA Technical Reports Server (NTRS)

    Lauterbach, L.

    1987-01-01

    The report documents the task planning and software development phases of an effort to obtain twenty versions of code independently designed and developed from a common specification. These versions were created for use in future experiments in software fault tolerance, in continuation of the experimental series underway at the Systems Validation Methods Branch (SVMB) at NASA Langley Research Center. The 20 versions were developed under controlled conditions at four U.S. universities, by 20 teams of two researchers each. The versions process raw data from a modified Redundant Strapped Down Inertial Measurement Unit (RSDIMU). The specifications, and over 200 questions submitted by the developers concerning the specifications, are included as appendices to this report. Design documents, and design and code walkthrough reports for each version, were also obtained in this task for use in future studies.

  12. LHCb migration from Subversion to Git

    NASA Astrophysics Data System (ADS)

    Clemencic, M.; Couturier, B.; Closier, J.; Cattaneo, M.

    2017-10-01

    Due to user demand and to support new development workflows based on code review and multiple development streams, LHCb decided to port the source code management from Subversion to Git, using the CERN GitLab hosting service. Although tools exist for this kind of migration, LHCb specificities and development models required careful planning of the migration, development of migration tools, changes to the development model, and redefinition of the release procedures. Moreover we had to support a hybrid situation with some software projects hosted in Git and others still in Subversion, or even branches of one projects hosted in different systems. We present the way we addressed the special LHCb requirements, the technical details of migrating large non standard Subversion repositories, and how we managed to smoothly migrate the software projects following the schedule of each project manager.

  13. The Ubiquitin Code in the Ubiquitin-Proteasome System and Autophagy.

    PubMed

    Kwon, Yong Tae; Ciechanover, Aaron

    2017-11-01

    The conjugation of the 76 amino acid protein ubiquitin to other proteins can alter the metabolic stability or non-proteolytic functions of the substrate. Once attached to a substrate (monoubiquitination), ubiquitin can itself be ubiquitinated on any of its seven lysine (Lys) residues or its N-terminal methionine (Met1). A single ubiquitin polymer may contain mixed linkages and/or two or more branches. In addition, ubiquitin can be conjugated with ubiquitin-like modifiers such as SUMO or small molecules such as phosphate. The diverse ways to assemble ubiquitin chains provide countless means to modulate biological processes. We overview here the complexity of the ubiquitin code, with an emphasis on the emerging role of linkage-specific degradation signals (degrons) in the ubiquitin-proteasome system (UPS) and the autophagy-lysosome system (hereafter autophagy). Copyright © 2017 Elsevier Ltd. All rights reserved.

  14. The FERRUM Project: Experimental Transition Probabilities of [Fe II] and Astrophysical Applications

    NASA Technical Reports Server (NTRS)

    Hartman, H.; Derkatch, A.; Donnelly, M. P.; Gull, T.; Hibbert, A.; Johannsson, S.; Lundberg, H.; Mannervik, S.; Norlin, L. -O.; Rostohar, D.

    2002-01-01

    We report on experimental transition probabilities for thirteen forbidden [Fe II] lines originating from three different metastable Fe II levels. Radiative lifetimes have been measured of two metastable states by applying a laser probing technique on a stored ion beam. Branching ratios for the radiative decay channels, i.e. M1 and E2 transitions, are derived from observed intensity ratios of forbidden lines in astrophysical spectra and compared with theoretical data. The lifetimes and branching ratios are combined to derive absolute transition probabilities, A-values. We present the first experimental lifetime values for the two Fe II levels a(sup 4)G(sub 9/2) and b(sup 2)H(sub 11/2) and A-values for 13 forbidden transitions from a(sup 6)S(sub 5/2), a(sup 4)G(sub 9/2) and b(sup 4)D(sub 7/2) in the optical region. A discrepancy between the measured and calculated values of the lifetime for the b(sup 2)H(sub 11/2) level is discussed in terms of level mixing. We have used the code CIV3 to calculate transition probabilities of the a(sup 6)D-a(sup 6)S transitions. We have also studied observational branching ratios for lines from 5 other metastable Fe II levels and compared them to calculated values. A consistency in the deviation between calibrated observational intensity ratios and theoretical branching ratios for lines in a wider wavelength region supports the use of [Fe II] lines for determination of reddening.

  15. Taxonomic revision of Gelidium tsengii and Gelidium honghaiwanense sp. nov. (Gelidiales, Rhodophyta) from China based upon molecular and morphological data analyses

    NASA Astrophysics Data System (ADS)

    Wang, Xulei; Xia, Bangmei; Bottalico, Antonella; Wang, Guangce

    2017-11-01

    The taxonomic relationship of Chinese Gelidium tsengii and Gelidium johnstonii was ambiguous. For almost 20 years they have been regarded as distinct taxa and until 2002 G. johnstonii was considered as a misapplied name of G. tsengii. In this study, herbarium specimens that initially attributed to G. tsengii and fresh G. tsengii specimens were used to address the taxonomic issues. In phylogenetic studies, G. tsengii from Dayawan, China, near the type locality of G. tsengii and G. johnstonii from Sonora, Mexico, the type locality of G. johnstonii, formed a monophyletic group with maximum support in rbcL and COI genes analyses, indicating that they were genetically identical. In morphological studies, G. tsengii was similar to G. johnstonii in branching pattern, inner structures and fructiferous organs. Consequently, we considered that semi-circular outline of G. tsengii could no longer be treated as a discrimating feature. G. johnstonii had priority of publication and according to the International Code of Botanical Nomenclature, G. tsengii was proposed as a synonym of G. johnstonii. Gelidium honghaiwanense sp. nov. was described from Guangdong, China on the basis of morphological and molecular data. For vegetative structures, it was characterized by flattened upright frond, regular two-three times branches pinnate or alternate and clavate ultimate branchlets. For reproductive structures, the tetrasporangial sori were in the apical part of branches and the tetrasporangial branchlets were distichously distributed along second order branches. The present study clarified the relationship between G. tsengii and G. johnstonii from Guangdong and added a new Gelidium species to the Chinese algal flora.

  16. Geoethics: Master's Students Knowledge and Perception of Its Importance

    NASA Astrophysics Data System (ADS)

    Almeida, António; Vasconcelos, Clara

    2015-12-01

    In the 1990s, the field of geoethics started its development, associated with a set of ethical principles that regulate the profession of geologists in their relationship with society and with nature. Given the importance of this field, but also its youth, 36 higher education students attending a Master's of Geology course were surveyed (20 were from an educational branch and 16 were from a scientific branch). The questionnaire applied to them aimed to achieve the following goals: (a) to identify the knowledge of the respondents about this new field and to verify their position about the inclusion of geoethics in the curriculum, (b) to understand how they consider the importance of geological knowledge in political decisions and (c) to investigate possible differences in the thinking of the respondents, given the specificities of their educational branches. The study concluded that the field of geoethics is unknown to the majority of the respondents. However, the recognition of its importance was also verified, after getting familiar with the definition of the concept, as well as the need for its inclusion in formal education. The respondents also considered relevant the creation of a deontological code that could provide geologists with ethical guidance. They also considered that geology should influence political decisions, but they did not consistently recognise the limits of its influence, which seems to reveal the need of a deeper understanding of the specific nature of geological knowledge when compared with other sciences. Almost all the results were similar in both groups, but the students from the educational branch offered more elaborate answers about the issues present in the questionnaire.

  17. Software engineering and automatic continuous verification of scientific software

    NASA Astrophysics Data System (ADS)

    Piggott, M. D.; Hill, J.; Farrell, P. E.; Kramer, S. C.; Wilson, C. R.; Ham, D.; Gorman, G. J.; Bond, T.

    2011-12-01

    Software engineering of scientific code is challenging for a number of reasons including pressure to publish and a lack of awareness of the pitfalls of software engineering by scientists. The Applied Modelling and Computation Group at Imperial College is a diverse group of researchers that employ best practice software engineering methods whilst developing open source scientific software. Our main code is Fluidity - a multi-purpose computational fluid dynamics (CFD) code that can be used for a wide range of scientific applications from earth-scale mantle convection, through basin-scale ocean dynamics, to laboratory-scale classic CFD problems, and is coupled to a number of other codes including nuclear radiation and solid modelling. Our software development infrastructure consists of a number of free tools that could be employed by any group that develops scientific code and has been developed over a number of years with many lessons learnt. A single code base is developed by over 30 people for which we use bazaar for revision control, making good use of the strong branching and merging capabilities. Using features of Canonical's Launchpad platform, such as code review, blueprints for designing features and bug reporting gives the group, partners and other Fluidity uers an easy-to-use platform to collaborate and allows the induction of new members of the group into an environment where software development forms a central part of their work. The code repositoriy are coupled to an automated test and verification system which performs over 20,000 tests, including unit tests, short regression tests, code verification and large parallel tests. Included in these tests are build tests on HPC systems, including local and UK National HPC services. The testing of code in this manner leads to a continuous verification process; not a discrete event performed once development has ceased. Much of the code verification is done via the "gold standard" of comparisons to analytical solutions via the method of manufactured solutions. By developing and verifying code in tandem we avoid a number of pitfalls in scientific software development and advocate similar procedures for other scientific code applications.

  18. Full-potential modeling of blade-vortex interactions

    NASA Technical Reports Server (NTRS)

    Jones, H. E.; Caradonna, F. X.

    1986-01-01

    A comparison is made of four different models for predicting the unsteady loading induced by a vortex passing close to an airfoil. (1) The first model approximates the vortex effect as a change in the airfoil angle of attack. (2) The second model is related to the first but, instead of imposing only a constant velocity on the airfoil, the distributed effect of the vortex is computed and used. This is analogous to a lifting surface method. (3) The third model is to specify a branch cut discontinuity in the potential field. The vortex is modeled as a jump in potential across the branch cut, the edge of which represents the center of the vortex. (4) The fourth method models the vortex expressing the potential as the sum of a known potential due to the vortex and an unknown perturbation due to the airfoil. The purpose of the current study is to investigate the four vortex models described above and to determine their relative merits and suitability for use in large three-dimensional codes.

  19. Whole-genome analyses resolve early branches in the tree of life of modern birds

    PubMed Central

    Jarvis, Erich D.; Mirarab, Siavash; Aberer, Andre J.; Li, Bo; Houde, Peter; Li, Cai; Ho, Simon Y. W.; Faircloth, Brant C.; Nabholz, Benoit; Howard, Jason T.; Suh, Alexander; Weber, Claudia C.; da Fonseca, Rute R.; Li, Jianwen; Zhang, Fang; Li, Hui; Zhou, Long; Narula, Nitish; Liu, Liang; Ganapathy, Ganesh; Boussau, Bastien; Bayzid, Md. Shamsuzzoha; Zavidovych, Volodymyr; Subramanian, Sankar; Gabaldón, Toni; Capella-Gutiérrez, Salvador; Huerta-Cepas, Jaime; Rekepalli, Bhanu; Munch, Kasper; Schierup, Mikkel; Lindow, Bent; Warren, Wesley C.; Ray, David; Green, Richard E.; Bruford, Michael W.; Zhan, Xiangjiang; Dixon, Andrew; Li, Shengbin; Li, Ning; Huang, Yinhua; Derryberry, Elizabeth P.; Bertelsen, Mads Frost; Sheldon, Frederick H.; Brumfield, Robb T.; Mello, Claudio V.; Lovell, Peter V.; Wirthlin, Morgan; Schneider, Maria Paula Cruz; Prosdocimi, Francisco; Samaniego, José Alfredo; Velazquez, Amhed Missael Vargas; Alfaro-Núñez, Alonzo; Campos, Paula F.; Petersen, Bent; Sicheritz-Ponten, Thomas; Pas, An; Bailey, Tom; Scofield, Paul; Bunce, Michael; Lambert, David M.; Zhou, Qi; Perelman, Polina; Driskell, Amy C.; Shapiro, Beth; Xiong, Zijun; Zeng, Yongli; Liu, Shiping; Li, Zhenyu; Liu, Binghang; Wu, Kui; Xiao, Jin; Yinqi, Xiong; Zheng, Qiuemei; Zhang, Yong; Yang, Huanming; Wang, Jian; Smeds, Linnea; Rheindt, Frank E.; Braun, Michael; Fjeldsa, Jon; Orlando, Ludovic; Barker, F. Keith; Jønsson, Knud Andreas; Johnson, Warren; Koepfli, Klaus-Peter; O’Brien, Stephen; Haussler, David; Ryder, Oliver A.; Rahbek, Carsten; Willerslev, Eske; Graves, Gary R.; Glenn, Travis C.; McCormack, John; Burt, Dave; Ellegren, Hans; Alström, Per; Edwards, Scott V.; Stamatakis, Alexandros; Mindell, David P.; Cracraft, Joel; Braun, Edward L.; Warnow, Tandy; Jun, Wang; Gilbert, M. Thomas P.; Zhang, Guojie

    2015-01-01

    To better determine the history of modern birds, we performed a genome-scale phylogenetic analysis of 48 species representing all orders of Neoaves using phylogenomic methods created to handle genome-scale data. We recovered a highly resolved tree that confirms previously controversial sister or close relationships. We identified the first divergence in Neoaves, two groups we named Passerea and Columbea, representing independent lineages of diverse and convergently evolved land and water bird species. Among Passerea, we infer the common ancestor of core landbirds to have been an apex predator and confirm independent gains of vocal learning. Among Columbea, we identify pigeons and flamingoes as belonging to sister clades. Even with whole genomes, some of the earliest branches in Neoaves proved challenging to resolve, which was best explained by massive protein-coding sequence convergence and high levels of incomplete lineage sorting that occurred during a rapid radiation after the Cretaceous-Paleogene mass extinction event about 66 million years ago. PMID:25504713

  20. Whole-genome analyses resolve early branches in the tree of life of modern birds.

    PubMed

    Jarvis, Erich D; Mirarab, Siavash; Aberer, Andre J; Li, Bo; Houde, Peter; Li, Cai; Ho, Simon Y W; Faircloth, Brant C; Nabholz, Benoit; Howard, Jason T; Suh, Alexander; Weber, Claudia C; da Fonseca, Rute R; Li, Jianwen; Zhang, Fang; Li, Hui; Zhou, Long; Narula, Nitish; Liu, Liang; Ganapathy, Ganesh; Boussau, Bastien; Bayzid, Md Shamsuzzoha; Zavidovych, Volodymyr; Subramanian, Sankar; Gabaldón, Toni; Capella-Gutiérrez, Salvador; Huerta-Cepas, Jaime; Rekepalli, Bhanu; Munch, Kasper; Schierup, Mikkel; Lindow, Bent; Warren, Wesley C; Ray, David; Green, Richard E; Bruford, Michael W; Zhan, Xiangjiang; Dixon, Andrew; Li, Shengbin; Li, Ning; Huang, Yinhua; Derryberry, Elizabeth P; Bertelsen, Mads Frost; Sheldon, Frederick H; Brumfield, Robb T; Mello, Claudio V; Lovell, Peter V; Wirthlin, Morgan; Schneider, Maria Paula Cruz; Prosdocimi, Francisco; Samaniego, José Alfredo; Vargas Velazquez, Amhed Missael; Alfaro-Núñez, Alonzo; Campos, Paula F; Petersen, Bent; Sicheritz-Ponten, Thomas; Pas, An; Bailey, Tom; Scofield, Paul; Bunce, Michael; Lambert, David M; Zhou, Qi; Perelman, Polina; Driskell, Amy C; Shapiro, Beth; Xiong, Zijun; Zeng, Yongli; Liu, Shiping; Li, Zhenyu; Liu, Binghang; Wu, Kui; Xiao, Jin; Yinqi, Xiong; Zheng, Qiuemei; Zhang, Yong; Yang, Huanming; Wang, Jian; Smeds, Linnea; Rheindt, Frank E; Braun, Michael; Fjeldsa, Jon; Orlando, Ludovic; Barker, F Keith; Jønsson, Knud Andreas; Johnson, Warren; Koepfli, Klaus-Peter; O'Brien, Stephen; Haussler, David; Ryder, Oliver A; Rahbek, Carsten; Willerslev, Eske; Graves, Gary R; Glenn, Travis C; McCormack, John; Burt, Dave; Ellegren, Hans; Alström, Per; Edwards, Scott V; Stamatakis, Alexandros; Mindell, David P; Cracraft, Joel; Braun, Edward L; Warnow, Tandy; Jun, Wang; Gilbert, M Thomas P; Zhang, Guojie

    2014-12-12

    To better determine the history of modern birds, we performed a genome-scale phylogenetic analysis of 48 species representing all orders of Neoaves using phylogenomic methods created to handle genome-scale data. We recovered a highly resolved tree that confirms previously controversial sister or close relationships. We identified the first divergence in Neoaves, two groups we named Passerea and Columbea, representing independent lineages of diverse and convergently evolved land and water bird species. Among Passerea, we infer the common ancestor of core landbirds to have been an apex predator and confirm independent gains of vocal learning. Among Columbea, we identify pigeons and flamingoes as belonging to sister clades. Even with whole genomes, some of the earliest branches in Neoaves proved challenging to resolve, which was best explained by massive protein-coding sequence convergence and high levels of incomplete lineage sorting that occurred during a rapid radiation after the Cretaceous-Paleogene mass extinction event about 66 million years ago. Copyright © 2014, American Association for the Advancement of Science.

  1. The mitochondrial genomes of the acoelomorph worms Paratomella rubra, Isodiametra pulchra and Archaphanostoma ylvae.

    PubMed

    Robertson, Helen E; Lapraz, François; Egger, Bernhard; Telford, Maximilian J; Schiffer, Philipp H

    2017-05-12

    Acoels are small, ubiquitous - but understudied - marine worms with a very simple body plan. Their internal phylogeny is still not fully resolved, and the position of their proposed phylum Xenacoelomorpha remains debated. Here we describe mitochondrial genome sequences from the acoels Paratomella rubra and Isodiametra pulchra, and the complete mitochondrial genome of the acoel Archaphanostoma ylvae. The P. rubra and A. ylvae sequences are typical for metazoans in size and gene content. The larger I. pulchra  mitochondrial genome contains both ribosomal genes, 21 tRNAs, but only 11 protein-coding genes. We find evidence suggesting a duplicated sequence in the I. pulchra mitochondrial genome. The P. rubra, I. pulchra and A. ylvae mitochondria have a unique genome organisation in comparison to other metazoan mitochondrial genomes. We found a large degree of protein-coding gene and tRNA overlap with little non-coding sequence in the compact P. rubra genome. Conversely, the A. ylvae and I. pulchra genomes have many long non-coding sequences between genes, likely driving genome size expansion in the latter. Phylogenetic trees inferred from mitochondrial genes retrieve Xenacoelomorpha as an early branching taxon in the deuterostomes. Sequence divergence analysis between P. rubra sampled in England and Spain indicates cryptic diversity.

  2. Abstract of talk for Silicon Valley Linux Users Group

    NASA Technical Reports Server (NTRS)

    Clanton, Sam

    2003-01-01

    The use of Linux for research at NASA Ames is discussed.Topics include:work with the Atmospheric Physics branch on software for a spectrometer to be used in the CRYSTAL-FACE mission this summer; work on in the Neuroengineering Lab with code IC including an introduction to the extension of the human senses project,advantages with using linux for real-time biological data processing,algorithms utilized on a linux system, goals of the project,slides of people with Neuroscan caps on, and progress that has been made and how linux has helped.

  3. Large-Constraint-Length, Fast Viterbi Decoder

    NASA Technical Reports Server (NTRS)

    Collins, O.; Dolinar, S.; Hsu, In-Shek; Pollara, F.; Olson, E.; Statman, J.; Zimmerman, G.

    1990-01-01

    Scheme for efficient interconnection makes VLSI design feasible. Concept for fast Viterbi decoder provides for processing of convolutional codes of constraint length K up to 15 and rates of 1/2 to 1/6. Fully parallel (but bit-serial) architecture developed for decoder of K = 7 implemented in single dedicated VLSI circuit chip. Contains six major functional blocks. VLSI circuits perform branch metric computations, add-compare-select operations, and then store decisions in traceback memory. Traceback processor reads appropriate memory locations and puts out decoded bits. Used as building block for decoders of larger K.

  4. Use of zerotree coding in a high-speed pyramid image multiresolution decomposition

    NASA Astrophysics Data System (ADS)

    Vega-Pineda, Javier; Cabrera, Sergio D.; Lucero, Aldo

    1995-03-01

    A Zerotree (ZT) coding scheme is applied as a post-processing stage to avoid transmitting zero data in the High-Speed Pyramid (HSP) image compression algorithm. This algorithm has features that increase the capability of the ZT coding to give very high compression rates. In this paper the impact of the ZT coding scheme is analyzed and quantified. The HSP algorithm creates a discrete-time multiresolution analysis based on a hierarchical decomposition technique that is a subsampling pyramid. The filters used to create the image residues and expansions can be related to wavelet representations. According to the pixel coordinates and the level in the pyramid, N2 different wavelet basis functions of various sizes and rotations are linearly combined. The HSP algorithm is computationally efficient because of the simplicity of the required operations, and as a consequence, it can be very easily implemented with VLSI hardware. This is the HSP's principal advantage over other compression schemes. The ZT coding technique transforms the different quantized image residual levels created by the HSP algorithm into a bit stream. The use of ZT's compresses even further the already compressed image taking advantage of parent-child relationships (trees) between the pixels of the residue images at different levels of the pyramid. Zerotree coding uses the links between zeros along the hierarchical structure of the pyramid, to avoid transmission of those that form branches of all zeros. Compression performance and algorithm complexity of the combined HSP-ZT method are compared with those of the JPEG standard technique.

  5. The development and evaluation of accident predictive models

    NASA Astrophysics Data System (ADS)

    Maleck, T. L.

    1980-12-01

    A mathematical model that will predict the incremental change in the dependent variables (accident types) resulting from changes in the independent variables is developed. The end product is a tool for estimating the expected number and type of accidents for a given highway segment. The data segments (accidents) are separated in exclusive groups via a branching process and variance is further reduced using stepwise multiple regression. The standard error of the estimate is calculated for each model. The dependent variables are the frequency, density, and rate of 18 types of accidents among the independent variables are: district, county, highway geometry, land use, type of zone, speed limit, signal code, type of intersection, number of intersection legs, number of turn lanes, left-turn control, all-red interval, average daily traffic, and outlier code. Models for nonintersectional accidents did not fit nor validate as well as models for intersectional accidents.

  6. Water Isotopes in the GISS GCM: History, Applications and Potential

    NASA Astrophysics Data System (ADS)

    Schmidt, G. A.; LeGrande, A. N.; Field, R. D.; Nusbaumer, J. M.

    2017-12-01

    Water isotopes have been incorporated in the GISS GCMs since the pioneering work of Jean Jouzel in the 1980s. Since 2005, this functionality has been maintained within the master branch of the development code and has been usable (and used) in all subsequent versions. This has allowed a wide variety of applications, across multiple time-scales and interests, to be tackled coherently. Water isotope tracers have been used to debug the atmospheric model code, tune parameterisations of moist processes, assess the isotopic fingerprints of multiple climate drivers, produce forward models for remotely sensed isotope products, and validate paleo-climate interpretations from the last millennium to the Eocene. We will present an overview of recent results involving isotope tracers, including improvements in models for the isotopic fractionation processes themselves, and demonstrate the potential for using these tracers and models more systematically in paleo-climate reconstructions and investigations of the modern hydrological cycle.

  7. Internet calculations of thermodynamic properties of substances: Some problems and results

    NASA Astrophysics Data System (ADS)

    Ustyuzhanin, E. E.; Ochkov, V. F.; Shishakov, V. V.; Rykov, S. V.

    2016-11-01

    Internet resources (databases, web sites and others) on thermodynamic properties R = (p,T,s,...) of technologically important substances are analyzed. These databases put online by a number of organizations (the Joint Institute for High Temperatures of the Russian Academy of Sciences, Standartinform, the National Institute of Standards and Technology USA, the Institute for Thermal Physics of the Siberian Branch of the Russian Academy of Sciences, etc) are investigated. Software codes are elaborated in the work in forms of “client functions” those have such characteristics: (i) they are placed on a remote server, (ii) they serve as open interactive Internet resources. A client can use them for a calculation of R properties of substances. “Complex client functions” are considered. They are focused on sharing (i) software codes elaborated to design of power plants (PP) and (ii) client functions those can calculate R properties of working fluids for PP.

  8. A Design for Composing and Extending Vehicle Models

    NASA Technical Reports Server (NTRS)

    Madden, Michael M.; Neuhaus, Jason R.

    2003-01-01

    The Systems Development Branch (SDB) at NASA Langley Research Center (LaRC) creates simulation software products for research. Each product consists of an aircraft model with experiment extensions. SDB treats its aircraft models as reusable components, upon which experiments can be built. SDB has evolved aircraft model design with the following goals: 1. Avoid polluting the aircraft model with experiment code. 2. Discourage the copy and tailor method of reuse. The current evolution of that architecture accomplishes these goals by reducing experiment creation to extend and compose. The architecture mechanizes the operational concerns of the model's subsystems and encapsulates them in an interface inherited by all subsystems. Generic operational code exercises the subsystems through the shared interface. An experiment is thus defined by the collection of subsystems that it creates ("compose"). Teams can modify the aircraft subsystems for the experiment using inheritance and polymorphism to create variants ("extend").

  9. Putative Independent Evolutionary Reversals from Genotypic to Temperature-Dependent Sex Determination are Associated with Accelerated Evolution of Sex-Determining Genes in Turtles.

    PubMed

    Literman, Robert; Burrett, Alexandria; Bista, Basanta; Valenzuela, Nicole

    2018-01-01

    The evolutionary lability of sex-determining mechanisms across the tree of life is well recognized, yet the extent of molecular changes that accompany these repeated transitions remain obscure. Most turtles retain the ancestral temperature-dependent sex determination (TSD) from which multiple transitions to genotypic sex determination (GSD) occurred independently, and two contrasting hypotheses posit the existence or absence of reversals back to TSD. Here we examined the molecular evolution of the coding regions of a set of gene regulators involved in gonadal development in turtles and several other vertebrates. We found slower molecular evolution in turtles and crocodilians compared to other vertebrates, but an acceleration in Trionychia turtles and at some phylogenetic branches demarcating major taxonomic diversification events. Of all gene classes examined, hormone signaling genes, and Srd5a1 in particular, evolve faster in many lineages and especially in turtles. Our data show that sex-linked genes do not follow a ubiquitous nor uniform pattern of molecular evolution. We then evaluated turtle nucleotide and protein evolution under two evolutionary hypotheses with or without GSD-to-TSD reversals, and found that when GSD-to-TSD reversals are considered, all transitional branches irrespective of direction, exhibit accelerated molecular evolution of nucleotide sequences, while GSD-to-TSD transitional branches also show acceleration in protein evolution. Significant changes in predicted secondary structure that may affect protein function were identified in three genes that exhibited hastened evolution in turtles compared to other vertebrates or in transitional versus non-transitional branches within turtles, rendering them candidates for a key role during SDM evolution in turtles.

  10. Glycans: bioactive signals decoded by lectins.

    PubMed

    Gabius, Hans-Joachim

    2008-12-01

    The glycan part of cellular glycoconjugates affords a versatile means to build biochemical signals. These oligosaccharides have an exceptional talent in this respect. They surpass any other class of biomolecule in coding capacity within an oligomer (code word). Four structural factors account for this property: the potential for variability of linkage points, anomeric position and ring size as well as the aptitude for branching (first and second dimensions of the sugar code). Specific intermolecular recognition is favoured by abundant potential for hydrogen/co-ordination bonds and for C-H/pi-interactions. Fittingly, an array of protein folds has developed in evolution with the ability to select certain glycans from the natural diversity. The thermodynamics of this reaction profits from the occurrence of these ligands in only a few energetically favoured conformers, comparing favourably with highly flexible peptides (third dimension of the sugar code). Sequence, shape and local aspects of glycan presentation (e.g. multivalency) are key factors to regulate the avidity of lectin binding. At the level of cells, distinct glycan determinants, a result of enzymatic synthesis and dynamic remodelling, are being defined as biomarkers. Their presence gains a functional perspective by co-regulation of the cognate lectin as effector, for example in growth regulation. The way to tie sugar signal and lectin together is illustrated herein for two tumour model systems. In this sense, orchestration of glycan and lectin expression is an efficient means, with far-reaching relevance, to exploit the coding potential of oligosaccharides physiologically and medically.

  11. Biased distribution of IS629 among strains in different lineages of enterohemorrhagic Escherichia coli serovar O157.

    PubMed

    Yokoyama, Eiji; Hashimoto, Ruiko; Etoh, Yoshiki; Ichihara, Sachiko; Horikawa, Kazumi; Uchimura, Masako

    2011-01-01

    The distribution of insertion sequence (IS) 629 among strains of enterohemorrhagic Escherichia coli serovar O157 (O157) was investigated and compared with the strain lineages defined by lineage specific polymorphism assay-6 (LSPA-6) to demonstrate the effectiveness of IS629 analysis for population genetics analysis. Using pulsed-field gel electrophoresis and variable-number tandem repeat typing, 140 strains producing both VT1 and VT2 and 98 strains producing only VT2 were selected from a total of 592 strains isolated from patients and asymptomatic carriers in Chiba Prefecture, Japan, during 2003-2008. By LSPA-6 analysis, six strains had atypical amplicon sizes in their Z5935 loci and five strains had atypical amplicon sizes in their arp-iclR intergenic regions. Sequence analyses of PCR amplified DNAs showed that five of the six loci used for LSPA-6 analysis had tandem repeats and the allele changes were due to changes in the number of tandem repeats. Subculturing and long-term incubation was found to have no detectable effect on the lineages defined by LSPA-6 analysis, demonstrating the robustness of LSPA-6 analysis. Minimum spanning tree analysis reconstruction revealed that strains in lineage I, I/II, and II clustered on separate branches, indicating that the distribution of IS629 was biased among O157 strains in different lineages. Strains with LSPA-6 codes 231111, 211113, and 211114 had atypical amplicon sizes and were clustered in lineage I/II branch, and strains with LSPA-6 codes 212114, 221123, 221223, 222123, 222224, 242123, 252123, and 242222 had atypical amplicon sizes and clustered in lineage II branches. Linkage disequilibrium was observed in strains in every lineage when the standardized index of association was calculated using IS629 distribution data. Therefore, the distribution analysis of IS629 may be effective for population genetics analysis of O157 due to the biased IS629 distribution among strains in the three O157 lineages. Copyright © 2010 Elsevier B.V. All rights reserved.

  12. Transition In Supersonic Flows With Corners

    NASA Technical Reports Server (NTRS)

    Balakumar, P.; McClinton, Charles (Technical Monitor)

    2001-01-01

    It is proposed to investigate the effect of sudden change in the slope of the surface on the stability and transition onset point in supersonic and hypersonic boundary layers. Since we can not use the linear stability theory in flows where there are discontinuities we have to solve the full Navier-Stokes equations to determine the amplification of the disturbances across the oblique shock which exists at the corner. We will use the Navier-Stokes code which was developed by Dr. Harold Atkins in the aerodynamic and acoustic methods branch. The code is developed using the higher order ENO scheme and is currently set up for two-dimensional flows. In the first year of our investigation, we will investigate the evolution of small amplitude two-dimensional disturbances and determine the N-factors for the most amplified disturbances. We will perform the analysis for the parameter similar to X-31 model and flight experiment conditions. From these computation we will infer what is the maximum amplification rate possible in quite environments without any tripping devices. In the second part of the investigation, we will perform nonlinear computations to determine what is the minimum amplitudes necessary to cause the transition at a designed location. In the third part, we have to determine what kind of trip devices necessary to excite the required disturbances. The principal investigator of this project is Dr. P. Balakumar, Associate Professor of Department of Aerospace Engineering, Old Dominion University. We will actively collaborate with research scientists in the Aero-Thermodynamics Branch at NASA/Langley Research Center. A half-time graduate student will also participate in the project.

  13. A KCNH2 branch point mutation causing aberrant splicing contributes to an explanation of genotype-negative long QT syndrome.

    PubMed

    Crotti, Lia; Lewandowska, Marzena A; Schwartz, Peter J; Insolia, Roberto; Pedrazzini, Matteo; Bussani, Erica; Dagradi, Federica; George, Alfred L; Pagani, Franco

    2009-02-01

    Genetic screening of long QT syndrome (LQTS) fails to identify disease-causing mutations in about 30% of patients. So far, molecular screening has focused mainly on coding sequence mutations or on substitutions at canonical splice sites. The purpose of this study was to explore the possibility that intronic variants not at canonical splice sites might affect splicing regulatory elements, lead to aberrant transcripts, and cause LQTS. Molecular screening was performed through DHPLC and sequence analysis. The role of the intronic mutation identified was assessed with a hybrid minigene splicing assay. A three-generation LQTS family was investigated. Molecular screening failed to identify an obvious disease-causing mutation in the coding sequences of the major LQTS genes but revealed an intronic A-to-G substitution in KCNH2 (IVS9-28A/G) cosegregating with the clinical phenotype in family members. In vitro analysis proved that the mutation disrupts the acceptor splice site definition by affecting the branch point (BP) sequence and promoting intron retention. We further demonstrated a tight functional relationship between the BP and the polypyrimidine tract, whose weakness is responsible for the pathological effect of the IVS9-28A/G mutation. We identified a novel BP mutation in KCNH2 that disrupts the intron 9 acceptor splice site definition and causes LQT2. The present finding demonstrates that intronic mutations affecting pre-mRNA processing may contribute to the failure of traditional molecular screening in identifying disease-causing mutations in LQTS subjects and offers a rationale strategy for the reduction of genotype-negative cases.

  14. Molecular variants of human papillomavirus type 16 from four continents suggest ancient pandemic spread of the virus and its coevolution with humankind.

    PubMed

    Chan, S Y; Ho, L; Ong, C K; Chow, V; Drescher, B; Dürst, M; ter Meulen, J; Villa, L; Luande, J; Mgaya, H N

    1992-04-01

    We have amplified by the polymerase chain reaction, cloned, and sequenced genomic segments of 118 human papillomavirus type 16 (HPV-16) isolates from 76 cervical biopsy, 14 cervical smear, 3 vulval biopsy, 2 penile biopsy, 2 anal biopsy, and 1 vaginal biopsy sample and two cell lines. The specimens were taken from patients in four countries--Singapore, Brazil, Tanzania, and Germany. The sequence of a 364-bp fragment of the long control region of the virus revealed 38 variants, most of which differed by one or several point mutations. Phylogenetic trees were constructed by distance matrix methods and a transformation series approach. The trees based on the long control region were supported by another set based on the complete E5 protein-coding region. Both sets had two main branches. Nearly all of the variants from Tanzania were assigned to one (African) branch, and all of the German and most of the Singaporean variants were assigned to the other (Eurasian) branch. While some German and Singaporean variants were identical, each group also contained variants that formed unique branches. In contrast to the group-internal homogeneity of the Singaporean, German, and Tanzanian variants, the Brazilian variants were clearly divided between the two branches. Exceptions to this were the seven Singaporean isolates with mutational patterns typical of the Tanzanian isolates. The data suggest that HPV-16 evolved separately for a long period in Africa and Eurasia. Representatives of both branches may have been transferred to Brazil via past colonial immigration. The comparable efficiencies of transfer of the African and the Eurasian variants to the New World suggest pandemic spread of HPV-16 in past centuries. Representatives of the African branch were possibly transferred to the Far East along old Arab and Indonesian sailing routes. Our data also support the view that HPV-16 is a well-defined virus type, since the variants show only a maximal genomic divergence of about 5%. The small amount of divergence in any one geographic location and the lack of marked divergence between the Tanzanian and Brazilian African genome variants two centuries after their likely introduction into the New World suggest a very slow rate of viral evolution. The phylogenetic tree therefore probably represents a minimum of several centuries of evolution, if not an age equal to that of the respective human races.

  15. The ALI-ARMS Code for Modeling Atmospheric non-LTE Molecular Band Emissions: Current Status and Applications

    NASA Technical Reports Server (NTRS)

    Kutepov, A. A.; Feofilov, A. G.; Manuilova, R. O.; Yankovsky, V. A.; Rezac, L.; Pesnell, W. D.; Goldberg, R. A.

    2008-01-01

    The Accelerated Lambda Iteration (ALI) technique was developed in stellar astrophysics at the beginning of 1990s for solving the non-LTE radiative transfer problem in atomic lines and multiplets in stellar atmospheres. It was later successfully applied to modeling the non-LTE emissions and radiative cooling/heating in the vibrational-rotational bands of molecules in planetary atmospheres. Similar to the standard lambda iterations ALI operates with the matrices of minimal dimension. However, it provides higher convergence rate and stability due to removing from the iterating process the photons trapped in the optically thick line cores. In the current ALI-ARMS (ALI for Atmospheric Radiation and Molecular Spectra) code version additional acceleration of calculations is provided by utilizing the opacity distribution function (ODF) approach and "decoupling". The former allows replacing the band branches by single lines of special shape, whereas the latter treats non-linearity caused by strong near-resonant vibration-vibrational level coupling without additional linearizing the statistical equilibrium equations. Latest code application for the non-LTE diagnostics of the molecular band emissions of Earth's and Martian atmospheres as well as for the non-LTE IR cooling/heating calculations are discussed.

  16. Effects of irrelevant sounds on phonological coding in reading comprehension and short-term memory.

    PubMed

    Boyle, R; Coltheart, V

    1996-05-01

    The effects of irrelevant sounds on reading comprehension and short-term memory were studied in two experiments. In Experiment 1, adults judged the acceptability of written sentences during irrelevant speech, accompanied and unaccompanied singing, instrumental music, and in silence. Sentences varied in syntactic complexity: Simple sentences contained a right-branching relative clause (The applause pleased the woman that gave the speech) and syntactically complex sentences included a centre-embedded relative clause (The hay that the farmer stored fed the hungry animals). Unacceptable sentences either sounded acceptable (The dog chased the cat that eight up all his food) or did not (The man praised the child that sight up his spinach). Decision accuracy was impaired by syntactic complexity but not by irrelevant sounds. Phonological coding was indicated by increased errors on unacceptable sentences that sounded correct. These errors rates were unaffected by irrelevant sounds. Experiment 2 examined effects of irrelevant sounds on ordered recall of phonologically similar and dissimilar word lists. Phonological similarity impaired recall. Irrelevant speech reduced recall but did not interact with phonological similarity. The results of these experiments question assumptions about the relationship between speech input and phonological coding in reading and the short-term store.

  17. Chemical and physical characterization of the first stages of protoplanetary disk formation

    NASA Astrophysics Data System (ADS)

    Hincelin, Ugo

    2012-12-01

    Low mass stars, like our Sun, are born from the collapse of a molecular cloud. The matter falls in the center of the cloud, creating a protoplanetary disk surrounding a protostar. Planets and other Solar System bodies will be formed in the disk. The chemical composition of the interstellar matter and its evolution during the formation of the disk are important to better understand the formation process of these objects. I studied the chemical and physical evolution of this matter, from the cloud to the disk, using the chemical gas-grain code Nautilus. A sensitivity study to some parameters of the code (such as elemental abundances and parameters of grain surface chemistry) has been done. More particularly, the updates of rate coefficients and branching ratios of the reactions of our chemical network showed their importance, such as on the abundances of some chemical species, and on the code sensitivity to others parameters. Several physical models of collapsing dense core have also been considered. The more complex and solid approach has been to interface our chemical code with the radiation-magneto-hydrodynamic model of stellar formation RAMSES, in order to model in three dimensions the physical and chemical evolution of a young disk formation. Our study showed that the disk keeps imprints of the past history of the matter, and so its chemical composition is sensitive to the initial conditions.

  18. CHEMICAL EVOLUTION LIBRARY FOR GALAXY FORMATION SIMULATION

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

    Saitoh, Takayuki R., E-mail: saitoh@elsi.jp

    We have developed a software library for chemical evolution simulations of galaxy formation under the simple stellar population (SSP) approximation. In this library, all of the necessary components concerning chemical evolution, such as initial mass functions, stellar lifetimes, yields from Type II and Type Ia supernovae, asymptotic giant branch stars, and neutron star mergers, are compiled from the literature. Various models are pre-implemented in this library so that users can choose their favorite combination of models. Subroutines of this library return released energy and masses of individual elements depending on a given event type. Since the redistribution manner of thesemore » quantities depends on the implementation of users’ simulation codes, this library leaves it up to the simulation code. As demonstrations, we carry out both one-zone, closed-box simulations and 3D simulations of a collapsing gas and dark matter system using this library. In these simulations, we can easily compare the impact of individual models on the chemical evolution of galaxies, just by changing the control flags and parameters of the library. Since this library only deals with the part of chemical evolution under the SSP approximation, any simulation codes that use the SSP approximation—namely, particle-base and mesh codes, as well as semianalytical models—can use it. This library is named “CELib” after the term “Chemical Evolution Library” and is made available to the community.« less

  19. Software Attribution for Geoscience Applications in the Computational Infrastructure for Geodynamics

    NASA Astrophysics Data System (ADS)

    Hwang, L.; Dumit, J.; Fish, A.; Soito, L.; Kellogg, L. H.; Smith, M.

    2015-12-01

    Scientific software is largely developed by individual scientists and represents a significant intellectual contribution to the field. As the scientific culture and funding agencies move towards an expectation that software be open-source, there is a corresponding need for mechanisms to cite software, both to provide credit and recognition to developers, and to aid in discoverability of software and scientific reproducibility. We assess the geodynamic modeling community's current citation practices by examining more than 300 predominantly self-reported publications utilizing scientific software in the past 5 years that is available through the Computational Infrastructure for Geodynamics (CIG). Preliminary results indicate that authors cite and attribute software either through citing (in rank order) peer-reviewed scientific publications, a user's manual, and/or a paper describing the software code. Attributions maybe found directly in the text, in acknowledgements, in figure captions, or in footnotes. What is considered citable varies widely. Citations predominantly lack software version numbers or persistent identifiers to find the software package. Versioning may be implied through reference to a versioned user manual. Authors sometimes report code features used and whether they have modified the code. As an open-source community, CIG requests that researchers contribute their modifications to the repository. However, such modifications may not be contributed back to a repository code branch, decreasing the chances of discoverability and reproducibility. Survey results through CIG's Software Attribution for Geoscience Applications (SAGA) project suggest that lack of knowledge, tools, and workflows to cite codes are barriers to effectively implement the emerging citation norms. Generated on-demand attributions on software landing pages and a prototype extensible plug-in to automatically generate attributions in codes are the first steps towards reproducibility.

  20. Experimental investigation of the impulse gas injection into liquid and the use of experimental data for verification of the HYDRA-IBRAE/LM thermohydraulic code

    NASA Astrophysics Data System (ADS)

    Lobanov, P. D.; Usov, E. V.; Butov, A. A.; Pribaturin, N. A.; Mosunova, N. A.; Strizhov, V. F.; Chukhno, V. I.; Kutlimetov, A. E.

    2017-10-01

    Experiments with impulse gas injection into model coolants, such as water or the Rose alloy, performed at the Novosibirsk Branch of the Nuclear Safety Institute, Russian Academy of Sciences, are described. The test facility and the experimental conditions are presented in details. The dependence of coolant pressure on the injected gas flow and the time of injection was determined. The purpose of these experiments was to verify the physical models of thermohydraulic codes for calculation of the processes that could occur during the rupture of tubes of a steam generator with heavy liquid metal coolant or during fuel rod failure in water-cooled reactors. The experimental results were used for verification of the HYDRA-IBRAE/LM system thermohydraulic code developed at the Nuclear Safety Institute, Russian Academy of Sciences. The models of gas bubble transportation in a vertical channel that are used in the code are described in detail. A two-phase flow pattern diagram and correlations for prediction of friction of bubbles and slugs as they float up in a vertical channel and of two-phase flow friction factor are presented. Based on the results of simulation of these experiments using the HYDRA-IBRAE/LM code, the arithmetic mean error in predicted pressures was calculated, and the predictions were analyzed considering the uncertainty in the input data, geometry of the test facility, and the error of the empirical correlation. The analysis revealed major factors having a considerable effect on the predictions. The recommendations are given on updating of the experimental results and improvement of the models used in the thermohydraulic code.

  1. Introduction of the ASP3D Computer Program for Unsteady Aerodynamic and Aeroelastic Analyses

    NASA Technical Reports Server (NTRS)

    Batina, John T.

    2005-01-01

    A new computer program has been developed called ASP3D (Advanced Small Perturbation 3D), which solves the small perturbation potential flow equation in an advanced form including mass-consistent surface and trailing wake boundary conditions, and entropy, vorticity, and viscous effects. The purpose of the program is for unsteady aerodynamic and aeroelastic analyses, especially in the nonlinear transonic flight regime. The program exploits the simplicity of stationary Cartesian meshes with the movement or deformation of the configuration under consideration incorporated into the solution algorithm through a planar surface boundary condition. The new ASP3D code is the result of a decade of developmental work on improvements to the small perturbation formulation, performed while the author was employed as a Senior Research Scientist in the Configuration Aerodynamics Branch at the NASA Langley Research Center. The ASP3D code is a significant improvement to the state-of-the-art for transonic aeroelastic analyses over the CAP-TSD code (Computational Aeroelasticity Program Transonic Small Disturbance), which was developed principally by the author in the mid-1980s. The author is in a unique position as the developer of both computer programs to compare, contrast, and ultimately make conclusions regarding the underlying formulations and utility of each code. The paper describes the salient features of the ASP3D code including the rationale for improvements in comparison with CAP-TSD. Numerous results are presented to demonstrate the ASP3D capability. The general conclusion is that the new ASP3D capability is superior to the older CAP-TSD code because of the myriad improvements developed and incorporated.

  2. Beyond standard model calculations with Sherpa

    DOE PAGES

    Höche, Stefan; Kuttimalai, Silvan; Schumann, Steffen; ...

    2015-03-24

    We present a fully automated framework as part of the Sherpa event generator for the computation of tree-level cross sections in beyond Standard Model scenarios, making use of model information given in the Universal FeynRules Output format. Elementary vertices are implemented into C++ code automatically and provided to the matrix-element generator Comix at runtime. Widths and branching ratios for unstable particles are computed from the same building blocks. The corresponding decays are simulated with spin correlations. Parton showers, QED radiation and hadronization are added by Sherpa, providing a full simulation of arbitrary BSM processes at the hadron level.

  3. Beyond standard model calculations with Sherpa.

    PubMed

    Höche, Stefan; Kuttimalai, Silvan; Schumann, Steffen; Siegert, Frank

    We present a fully automated framework as part of the Sherpa event generator for the computation of tree-level cross sections in Beyond Standard Model scenarios, making use of model information given in the Universal FeynRules Output format. Elementary vertices are implemented into C++ code automatically and provided to the matrix-element generator Comix at runtime. Widths and branching ratios for unstable particles are computed from the same building blocks. The corresponding decays are simulated with spin correlations. Parton showers, QED radiation and hadronization are added by Sherpa, providing a full simulation of arbitrary BSM processes at the hadron level.

  4. Development of a Unix/VME data acquisition system

    NASA Astrophysics Data System (ADS)

    Miller, M. C.; Ahern, S.; Clark, S. M.

    1992-01-01

    The current status of a Unix-based VME data acquisition development project is described. It is planned to use existing Fortran data collection software to drive the existing CAMAC electronics via a VME CAMAC branch driver card and associated Daresbury Unix driving software. The first usable Unix driver has been written and produces single-action CAMAC cycles from test software. The data acquisition code has been implemented in test mode under Unix with few problems and effort is now being directed toward finalizing calls to the CAMAC-driving software and ultimate evaluation of the complete system.

  5. ISSOL Meeting, Barcelona, Spain, 1993

    NASA Technical Reports Server (NTRS)

    Ferris, James P. (Editor)

    1995-01-01

    Topics in a conference on the origins of life and the evolution of the biosphere include the origin of chirality, prebiotic chemistry of small biomolecules, primitive polymer formation, RNA regulation and control. Early origins of life and the ecology of hydrothermal systems such as ocean floor vents and their simple organisms are examined. The process of mineral catalysis in Montmorillonite as a model for early metabolism is used. The origin of the genetic code and the development of branching in molecular structures of amino acids is described. Studies are reported of the effects of meteorite impact on early Earth life.

  6. Software Management Environment (SME): Components and algorithms

    NASA Technical Reports Server (NTRS)

    Hendrick, Robert; Kistler, David; Valett, Jon

    1994-01-01

    This document presents the components and algorithms of the Software Management Environment (SME), a management tool developed for the Software Engineering Branch (Code 552) of the Flight Dynamics Division (FDD) of the Goddard Space Flight Center (GSFC). The SME provides an integrated set of visually oriented experienced-based tools that can assist software development managers in managing and planning software development projects. This document describes and illustrates the analysis functions that underlie the SME's project monitoring, estimation, and planning tools. 'SME Components and Algorithms' is a companion reference to 'SME Concepts and Architecture' and 'Software Engineering Laboratory (SEL) Relationships, Models, and Management Rules.'

  7. Heuristic algorithm for optical character recognition of Arabic script

    NASA Astrophysics Data System (ADS)

    Yarman-Vural, Fatos T.; Atici, A.

    1996-02-01

    In this paper, a heuristic method is developed for segmentation, feature extraction and recognition of the Arabic script. The study is part of a large project for the transcription of the documents in Ottoman Archives. A geometrical and topological feature analysis method is developed for segmentation and feature extraction stages. Chain code transformation is applied to main strokes of the characters which are then classified by the hidden Markov model (HMM) in the recognition stage. Experimental results indicate that the performance of the proposed method is impressive, provided that the thinning process does not yield spurious branches.

  8. GOMA 6.0 :

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

    Schunk, Peter Randall; Rao, Rekha Ranjana; Chen, Ken S

    Goma 6.0 is a finite element program which excels in analyses of multiphysical processes, particularly those involving the major branches of mechanics (viz. fluid/solid mechanics, energy transport and chemical species transport). Goma is based on a full-Newton-coupled algorithm which allows for simultaneous solution of the governing principles, making the code ideally suited for problems involving closely coupled bulk mechanics and interfacial phenomena. Example applications include, but are not limited to, coating and polymer processing flows, super-alloy processing, welding/soldering, electrochemical processes, and solid-network or solution film drying. This document serves as a users guide and reference.

  9. Science Goals to Requirements

    NASA Technical Reports Server (NTRS)

    Reuter, Dennis

    2015-01-01

    The presentation will be given at the 26th Annual Thermal Fluids Analysis Workshop (TFAWS 2015) hosted by the Goddard SpaceFlight Center (GSFC) Thermal Engineering Branch (Code 545): This short course will present the science goals for a variety of types of imaging and spectral measurements, the thermal requirements that these goals impose on the instruments designed to obtain the measurements, and some of the types of trades that can be made among instrument subsystems to ensure the required performance is maintained. Examples of thermal system evolution from initial concept to final implementation will be given for several actual systems.

  10. Analysis of the genome sequence of the pathogenic Muscovy duck parvovirus strain YY reveals a 14-nucleotide-pair deletion in the inverted terminal repeats.

    PubMed

    Wang, Jianye; Huang, Yu; Zhou, Mingxu; Zhu, Guoqiang

    2016-09-01

    Genomic information about Muscovy duck parvovirus is still limited. In this study, the genome of the pathogenic MDPV strain YY was sequenced. The full-length genome of YY is 5075 nucleotides (nt) long, 57 nt shorter than that of strain FM. Sequence alignment indicates that the 5' and 3' inverted terminal repeats (ITR) of strain YY contain a 14-nucleotide-pair deletion in the stem of the palindromic hairpin structure in comparison to strain FM and FZ91-30. The deleted region contains one "E-box" site and one repeated motif with the sequence "TTCCGGT" or "ACCGGAA". Phylogenetic trees constructed based the protein coding genes concordantly showed that YY, together with nine other MDPV isolates from various places, clustered in a separate branch, distinct from the branch formed by goose parvovirus (GPV) strains. These results demonstrate that, despite the distinctive deletion, the YY strain still belongs to the classical MDPV group. Moreover, the deletion of ITR may contribute to the genome evolution of MDPV under immunization pressure.

  11. The use of quality benchmarking in assessing web resources for the dermatology virtual branch library of the National electronic Library for Health (NeLH).

    PubMed

    Kamel Boulos, M N; Roudsari, A V; Gordon, C; Muir Gray, J A

    2001-01-01

    In 1998, the U.K. National Health Service Information for Health Strategy proposed the implementation of a National electronic Library for Health to provide clinicians, healthcare managers and planners, patients and the public with easy, round the clock access to high quality, up-to-date electronic information on health and healthcare. The Virtual Branch Libraries are among the most important components of the National electronic Library for Health. They aim at creating online knowledge based communities, each concerned with some specific clinical and other health-related topics. This study is about the envisaged Dermatology Virtual Branch Libraries of the National electronic Library for Health. It aims at selecting suitable dermatology Web resources for inclusion in the forthcoming Virtual Branch Libraries after establishing preliminary quality benchmarking rules for this task. Psoriasis, being a common dermatological condition, has been chosen as a starting point. Because quality is a principal concern of the National electronic Library for Health, the study includes a review of the major quality benchmarking systems available today for assessing health-related Web sites. The methodology of developing a quality benchmarking system has been also reviewed. Aided by metasearch Web tools, candidate resources were hand-selected in light of the reviewed benchmarking systems and specific criteria set by the authors. Over 90 professional and patient-oriented Web resources on psoriasis and dermatology in general are suggested for inclusion in the forthcoming Dermatology Virtual Branch Libraries. The idea of an all-in knowledge-hallmarking instrument for the National electronic Library for Health is also proposed based on the reviewed quality benchmarking systems. Skilled, methodical, organized human reviewing, selection and filtering based on well-defined quality appraisal criteria seems likely to be the key ingredient in the envisaged National electronic Library for Health service. Furthermore, by promoting the application of agreed quality guidelines and codes of ethics by all health information providers and not just within the National electronic Library for Health, the overall quality of the Web will improve with time and the Web will ultimately become a reliable and integral part of the care space.

  12. Validation of NASA Thermal Ice Protection Computer Codes. Part 1; Program Overview

    NASA Technical Reports Server (NTRS)

    Miller, Dean; Bond, Thomas; Sheldon, David; Wright, William; Langhals, Tammy; Al-Khalil, Kamel; Broughton, Howard

    1996-01-01

    The Icing Technology Branch at NASA Lewis has been involved in an effort to validate two thermal ice protection codes developed at the NASA Lewis Research Center. LEWICE/Thermal (electrothermal deicing & anti-icing), and ANTICE (hot-gas & electrothermal anti-icing). The Thermal Code Validation effort was designated as a priority during a 1994 'peer review' of the NASA Lewis Icing program, and was implemented as a cooperative effort with industry. During April 1996, the first of a series of experimental validation tests was conducted in the NASA Lewis Icing Research Tunnel(IRT). The purpose of the April 96 test was to validate the electrothermal predictive capabilities of both LEWICE/Thermal, and ANTICE. A heavily instrumented test article was designed and fabricated for this test, with the capability of simulating electrothermal de-icing and anti-icing modes of operation. Thermal measurements were then obtained over a range of test conditions, for comparison with analytical predictions. This paper will present an overview of the test, including a detailed description of: (1) the validation process; (2) test article design; (3) test matrix development; and (4) test procedures. Selected experimental results will be presented for de-icing and anti-icing modes of operation. Finally, the status of the validation effort at this point will be summarized. Detailed comparisons between analytical predictions and experimental results are contained in the following two papers: 'Validation of NASA Thermal Ice Protection Computer Codes: Part 2- The Validation of LEWICE/Thermal' and 'Validation of NASA Thermal Ice Protection Computer Codes: Part 3-The Validation of ANTICE'

  13. A High-resolution Study of Presupernova Core Structure

    NASA Astrophysics Data System (ADS)

    Sukhbold, Tuguldur; Woosley, S. E.; Heger, Alexander

    2018-06-01

    The density structure surrounding the iron core of a massive star when it dies is known to have a major effect on whether or not the star explodes. Here we repeat previous surveys of presupernova evolution with some important corrections to code physics and four to 10 times better mass resolution in each star. The number of presupernova masses considered is also much larger. Over 4000 models are calculated in the range from 12 to 60 M ⊙ with varying mass loss rates. The core structure is not greatly affected by the increased spatial resolution. The qualitative patterns of compactness measures and their extrema are the same, but with the increased number of models, the scatter seen in previous studies is replaced by several localized branches. More physics-based analyses by Ertl et al. and Müller et al. show these branches with less scatter than the single-parameter characterization of O’Connor & Ott. These branches are particularly apparent for stars in the mass ranges 14–19 and 22–24 M ⊙. The multivalued solutions are a consequence of interference between several carbon- and oxygen-burning shells during the late stages of evolution. For a relevant range of masses, whether a star explodes or not may reflect the small, almost random differences in its late evolution more than its initial mass. The large number of models allows statistically meaningful statements about the radius, luminosity, and effective temperatures of presupernova stars, their core structures, and their remnant mass distributions.

  14. Keck Observations of the UV-Bright Star Barnard 29 in the Globular Cluster M13 (NGC 6205)

    NASA Astrophysics Data System (ADS)

    Dixon, William Van Dyke; Chayer, Pierre; Reid, Iain N.

    2016-06-01

    In color-magnitude diagrams of globular clusters, stars brighter than the horizontal branch and bluer than the red-giant branch are known as UV-bright stars. Most are evolving from the asymptotic giant branch (AGB) to the tip of the white-dwarf cooling curve. To better understand this important phase of stellar evolution, we have analyzed a Keck HIRES echelle spectrum of the UV-bright star Barnard 29 in M13. We begin by fitting the star's H I (Hα, Hβ, and Hγ) and He I lines with a grid of synthetic spectra generated from non-LTE H-He models computed using the TLUSTY code. We find that the shape of the star's Hα profile is not well reproduced with these models. Upgrading from version 200 to version 204M of TLUSTY solves this problem: the Hα profile is now well reproduced. TLUSTY version 204 includes improved calculations for the Stark broadening of hydrogen line profiles. Using these models, we derive stellar parameters of Teff = 21,100 K, log g = 3.05, and log (He/H) = -0.87, values consistent with those of previous authors. The star's Keck spectrum shows photospheric absorption from N II, O II, Mg II, Al III, Si II, Si III, S II, Ar II, and Fe III. The abundances of these species are consistent with published values for the red-giant stars in M13, suggesting that the star's chemistry has changed little since it left the AGB.

  15. Design of a numerical model of lung by means of a special boundary condition in the truncated branches.

    PubMed

    Tena, Ana F; Fernández, Joaquín; Álvarez, Eduardo; Casan, Pere; Walters, D Keith

    2017-06-01

    The need for a better understanding of pulmonary diseases has led to increased interest in the development of realistic computational models of the human lung. To minimize computational cost, a reduced geometry model is used for a model lung airway geometry up to generation 16. Truncated airway branches require physiologically realistic boundary conditions to accurately represent the effect of the removed airway sections. A user-defined function has been developed, which applies velocities mapped from similar locations in fully resolved airway sections. The methodology can be applied in any general purpose computational fluid dynamics code, with the only limitation that the lung model must be symmetrical in each truncated branch. Unsteady simulations have been performed to verify the operation of the model. The test case simulates a spirometry because the lung is obliged to rapidly perform both inspiration and expiration. Once the simulation was completed, the obtained pressure in the lower level of the lung was used as a boundary condition. The output velocity, which is a numerical spirometry, was compared with the experimental spirometry for validation purposes. This model can be applied for a wide range of patient-specific resolution levels. If the upper airway generations have been constructed from a computed tomography scan, it would be possible to quickly obtain a complete reconstruction of the lung specific to a specific person, which would allow individualized therapies. Copyright © 2016 John Wiley & Sons, Ltd.

  16. The Importance of the 13C(α,n)16O Reaction in Asymptotic Giant Branch Stars

    NASA Astrophysics Data System (ADS)

    Cristallo, S.; La Cognata, M.; Massimi, C.; Best, A.; Palmerini, S.; Straniero, O.; Trippella, O.; Busso, M.; Ciani, G. F.; Mingrone, F.; Piersanti, L.; Vescovi, D.

    2018-06-01

    Low-mass asymptotic giant branch stars are among the most important polluters of the interstellar medium. In their interiors, the main component (A ≳ 90) of the slow neutron capture process (the s-process) is synthesized, the most important neutron source being the 13C(α,n)16O reaction. In this paper, we review its current experimental status, discussing possible future synergies between some experiments currently focused on the determination of its rate. Moreover, in order to determine the level of precision needed to fully characterize this reaction, we present a theoretical sensitivity study, carried out with the FUNS evolutionary stellar code and the NEWTON post-process code. We modify the rate up to a factor of 2 with respect to a reference case. We find that variations of the 13C(α,n)16O rate do not appreciably affect s-process distributions for masses above 3 M ⊙ at any metallicity. Apart from a few isotopes, in fact, the differences are always below 5%. The situation is completely different if some 13C burns in a convective environment: this occurs in FUNS models with M < 3 M ⊙ at solar-like metallicities. In this case, a change of the 13C(α,n)16O reaction rate leads to nonnegligible variations of the element surface distribution (10% on average), with larger peaks for some elements (such as rubidium) and neutron-rich isotopes (such as 86Kr and 96Zr). Larger variations are found in low-mass, low-metallicity models if protons are mixed and burned at very high temperatures. In this case, the surface abundances of the heavier elements may vary by more than a factor of 50.

  17. Code inspection instructional validation

    NASA Technical Reports Server (NTRS)

    Orr, Kay; Stancil, Shirley

    1992-01-01

    The Shuttle Data Systems Branch (SDSB) of the Flight Data Systems Division (FDSD) at Johnson Space Center contracted with Southwest Research Institute (SwRI) to validate the effectiveness of an interactive video course on the code inspection process. The purpose of this project was to determine if this course could be effective for teaching NASA analysts the process of code inspection. In addition, NASA was interested in the effectiveness of this unique type of instruction (Digital Video Interactive), for providing training on software processes. This study found the Carnegie Mellon course, 'A Cure for the Common Code', effective for teaching the process of code inspection. In addition, analysts prefer learning with this method of instruction, or this method in combination with other methods. As is, the course is definitely better than no course at all; however, findings indicate changes are needed. Following are conclusions of this study. (1) The course is instructionally effective. (2) The simulation has a positive effect on student's confidence in his ability to apply new knowledge. (3) Analysts like the course and prefer this method of training, or this method in combination with current methods of training in code inspection, over the way training is currently being conducted. (4) Analysts responded favorably to information presented through scenarios incorporating full motion video. (5) Some course content needs to be changed. (6) Some content needs to be added to the course. SwRI believes this study indicates interactive video instruction combined with simulation is effective for teaching software processes. Based on the conclusions of this study, SwRI has outlined seven options for NASA to consider. SwRI recommends the option which involves creation of new source code and data files, but uses much of the existing content and design from the current course. Although this option involves a significant software development effort, SwRI believes this option will produce the most effective results.

  18. ATLAS offline software performance monitoring and optimization

    NASA Astrophysics Data System (ADS)

    Chauhan, N.; Kabra, G.; Kittelmann, T.; Langenberg, R.; Mandrysch, R.; Salzburger, A.; Seuster, R.; Ritsch, E.; Stewart, G.; van Eldik, N.; Vitillo, R.; Atlas Collaboration

    2014-06-01

    In a complex multi-developer, multi-package software environment, such as the ATLAS offline framework Athena, tracking the performance of the code can be a non-trivial task in itself. In this paper we describe improvements in the instrumentation of ATLAS offline software that have given considerable insight into the performance of the code and helped to guide the optimization work. The first tool we used to instrument the code is PAPI, which is a programing interface for accessing hardware performance counters. PAPI events can count floating point operations, cycles, instructions and cache accesses. Triggering PAPI to start/stop counting for each algorithm and processed event results in a good understanding of the algorithm level performance of ATLAS code. Further data can be obtained using Pin, a dynamic binary instrumentation tool. Pin tools can be used to obtain similar statistics as PAPI, but advantageously without requiring recompilation of the code. Fine grained routine and instruction level instrumentation is also possible. Pin tools can additionally interrogate the arguments to functions, like those in linear algebra libraries, so that a detailed usage profile can be obtained. These tools have characterized the extensive use of vector and matrix operations in ATLAS tracking. Currently, CLHEP is used here, which is not an optimal choice. To help evaluate replacement libraries a testbed has been setup allowing comparison of the performance of different linear algebra libraries (including CLHEP, Eigen and SMatrix/SVector). Results are then presented via the ATLAS Performance Management Board framework, which runs daily with the current development branch of the code and monitors reconstruction and Monte-Carlo jobs. This framework analyses the CPU and memory performance of algorithms and an overview of results are presented on a web page. These tools have provided the insight necessary to plan and implement performance enhancements in ATLAS code by identifying the most common operations, with the call parameters well understood, and allowing improvements to be quantified in detail.

  19. Efficient Skeletonization of Volumetric Objects.

    PubMed

    Zhou, Yong; Toga, Arthur W

    1999-07-01

    Skeletonization promises to become a powerful tool for compact shape description, path planning, and other applications. However, current techniques can seldom efficiently process real, complicated 3D data sets, such as MRI and CT data of human organs. In this paper, we present an efficient voxel-coding based algorithm for Skeletonization of 3D voxelized objects. The skeletons are interpreted as connected centerlines. consisting of sequences of medial points of consecutive clusters. These centerlines are initially extracted as paths of voxels, followed by medial point replacement, refinement, smoothness, and connection operations. The voxel-coding techniques have been proposed for each of these operations in a uniform and systematic fashion. In addition to preserving basic connectivity and centeredness, the algorithm is characterized by straightforward computation, no sensitivity to object boundary complexity, explicit extraction of ready-to-parameterize and branch-controlled skeletons, and efficient object hole detection. These issues are rarely discussed in traditional methods. A range of 3D medical MRI and CT data sets were used for testing the algorithm, demonstrating its utility.

  20. Cloning and molecular evolution of the aldehyde dehydrogenase 2 gene (Aldh2) in bats (Chiroptera).

    PubMed

    Chen, Yao; Shen, Bin; Zhang, Junpeng; Jones, Gareth; He, Guimei

    2013-02-01

    Old World fruit bats (Pteropodidae) and New World fruit bats (Phyllostomidae) ingest significant quantities of ethanol while foraging. Mitochondrial aldehyde dehydrogenase (ALDH2, encoded by the Aldh2 gene) plays an important role in ethanol metabolism. To test whether the Aldh2 gene has undergone adaptive evolution in frugivorous and nectarivorous bats in relation to ethanol elimination, we sequenced part of the coding region of the gene (1,143 bp, ~73 % coverage) in 14 bat species, including three Old World fruit bats and two New World fruit bats. Our results showed that the Aldh2 coding sequences are highly conserved across all bat species we examined, and no evidence of positive selection was detected in the ancestral branches leading to Old World fruit bats and New World fruit bats. Further research is needed to determine whether other genes involved in ethanol metabolism have been the targets of positive selection in frugivorous and nectarivorous bats.

  1. SARAH 4: A tool for (not only SUSY) model builders

    NASA Astrophysics Data System (ADS)

    Staub, Florian

    2014-06-01

    We present the new version of the Mathematica package SARAH which provides the same features for a non-supersymmetric model as previous versions for supersymmetric models. This includes an easy and straightforward definition of the model, the calculation of all vertices, mass matrices, tadpole equations, and self-energies. Also the two-loop renormalization group equations for a general gauge theory are now included and have been validated with the independent Python code PyR@TE. Model files for FeynArts, CalcHep/CompHep, WHIZARD and in the UFO format can be written, and source code for SPheno for the calculation of the mass spectrum, a set of precision observables, and the decay widths and branching ratios of all states can be generated. Furthermore, the new version includes routines to output model files for Vevacious for both, supersymmetric and non-supersymmetric, models. Global symmetries are also supported with this version and by linking Susyno the handling of Lie groups has been improved and extended.

  2. A Roadmap to Continuous Integration for ATLAS Software Development

    NASA Astrophysics Data System (ADS)

    Elmsheuser, J.; Krasznahorkay, A.; Obreshkov, E.; Undrus, A.; ATLAS Collaboration

    2017-10-01

    The ATLAS software infrastructure facilitates efforts of more than 1000 developers working on the code base of 2200 packages with 4 million lines of C++ and 1.4 million lines of python code. The ATLAS offline code management system is the powerful, flexible framework for processing new package versions requests, probing code changes in the Nightly Build System, migration to new platforms and compilers, deployment of production releases for worldwide access and supporting physicists with tools and interfaces for efficient software use. It maintains multi-stream, parallel development environment with about 70 multi-platform branches of nightly releases and provides vast opportunities for testing new packages, for verifying patches to existing software and for migrating to new platforms and compilers. The system evolution is currently aimed on the adoption of modern continuous integration (CI) practices focused on building nightly releases early and often, with rigorous unit and integration testing. This paper describes the CI incorporation program for the ATLAS software infrastructure. It brings modern open source tools such as Jenkins and GitLab into the ATLAS Nightly System, rationalizes hardware resource allocation and administrative operations, provides improved feedback and means to fix broken builds promptly for developers. Once adopted, ATLAS CI practices will improve and accelerate innovation cycles and result in increased confidence in new software deployments. The paper reports the status of Jenkins integration with the ATLAS Nightly System as well as short and long term plans for the incorporation of CI practices.

  3. Thermal Hardware for the Thermal Analyst

    NASA Technical Reports Server (NTRS)

    Steinfeld, David

    2015-01-01

    The presentation will be given at the 26th Annual Thermal Fluids Analysis Workshop (TFAWS 2015) hosted by the Goddard Space Flight Center (GSFC) Thermal Engineering Branch (Code 545). NCTS 21070-1. Most Thermal analysts do not have a good background into the hardware which thermally controls the spacecraft they design. SINDA and Thermal Desktop models are nice, but knowing how this applies to the actual thermal hardware (heaters, thermostats, thermistors, MLI blanketing, optical coatings, etc...) is just as important. The course will delve into the thermal hardware and their application techniques on actual spacecraft. Knowledge of how thermal hardware is used and applied will make a thermal analyst a better engineer.

  4. Particle-in-cell simulations on graphic processing units

    NASA Astrophysics Data System (ADS)

    Ren, C.; Zhou, X.; Li, J.; Huang, M. C.; Zhao, Y.

    2014-10-01

    We will show our recent progress in using GPU's to accelerate the PIC code OSIRIS [Fonseca et al. LNCS 2331, 342 (2002)]. The OISRIS parallel structure is retained and the computation-intensive kernels are shipped to GPU's. Algorithms for the kernels are adapted for the GPU, including high-order charge-conserving current deposition schemes with few branching and parallel particle sorting [Kong et al., JCP 230, 1676 (2011)]. These algorithms make efficient use of the GPU shared memory. This work was supported by U.S. Department of Energy under Grant No. DE-FC02-04ER54789 and by NSF under Grant No. PHY-1314734.

  5. Management of a CFD organization in support of space hardware development

    NASA Technical Reports Server (NTRS)

    Schutzenhofer, L. A.; Mcconnaughey, P. K.; Mcconnaughey, H. V.; Wang, T. S.

    1991-01-01

    The management strategy of NASA-Marshall's CFD branch in support of space hardware development and code validation implements various elements of total quality management. The strategy encompasses (1) a teaming strategy which focuses on the most pertinent problem, (2) quick-turnaround analysis, (3) the evaluation of retrofittable design options through sensitivity analysis, and (4) coordination between the chief engineer and the hardware contractors. Advanced-technology concepts are being addressed via the definition of technology-development projects whose products are transferable to hardware programs and the integration of research activities with industry, government agencies, and universities, on the basis of the 'consortium' concept.

  6. A new disclosure index for Non-Governmental Organizations.

    PubMed

    Nazuk, Ayesha; Shabbir, Javid

    2018-01-01

    Website of Non-governmental organization (NGO) is a focal medium of sharing information in response to transparency demands and addressing trust deficits between stakeholders. Many researchers have proposed accountability approaches to measure information sharing trends through websites. This article discusses a new index to measure online disclosure trends along with the theoretical properties of the index and a practical application of data from NGOs working in Pakistan. The websites have been coded in 2016. Results show that NGOs with branch offices have better disclosure scores than single-office NGOs, and international NGOs score better than local NGOs. NGOs that are more often the subject of newspaper reports have better disclosure trends.

  7. Aerothermodynamics research at NASA Ames Research Center

    NASA Technical Reports Server (NTRS)

    Deiwert, George S.

    1987-01-01

    Research activity in the aerothermodynamics branch at the NASA Ames Research Center is reviewed. Advanced concepts and mission studies relating to the next generation aerospace transportation systems are summarized and directions for continued research identified. Theoretical and computational studies directed at determining flow fields and radiative and convective heating loads in real gases are described. Included are Navier-Stokes codes for equilibrium and thermochemical nonequilibrium air. Experimental studies in the 3.5-ft hypersonic wind tunnel, the ballistic ranges, and the electric arc driven shock tube are described. Tested configurations include generic hypersonic aerospace plane configurations, aeroassisted orbital transfer vehicle shapes and Galileo probe models.

  8. Simultaneous measurements of temperature and density in air flows using UV laser spectroscopy

    NASA Technical Reports Server (NTRS)

    Fletcher, D. G.; Mckenzie, R. L.

    1991-01-01

    The simultaneous measurement of temperature and density using laser-induced fluorescence of oxygen in combination with Q-branch Raman scattering of nitrogen and oxygen is demonstrated in a low-speed air flow. The lowest density and temperature measured in the experiment correspond to the freestream values at Mach 5 in the Ames 3.5-Foot Hypersonic Wind Tunnel for stagnation conditions of 100 atm and 1000 K. The experimental results demonstrate the viability of the optical technique for measurements that support the study of compressible turbulence and the validation of numerical codes in supersonic and hypersonic wind tunnel flows.

  9. Second NASA Workshop on Wiring for Space Applications

    NASA Technical Reports Server (NTRS)

    1994-01-01

    This document contains the proceedings of the Second NASA Workshop on Wiring for Space Applications held at NASA LeRC in Cleveland, OH, 6-7 Oct. 1993. The workshop was sponsored by NASA Headquarters Code QW Office of Safety and Mission Quality, Technical Standards Division and hosted by NASA LeRC, Power Technology Division, Electrical Components and Systems Branch. The workshop addressed key technology issues in the field of electrical power wiring for space applications. Speakers from government, industry, and academia presented and discussed topics on arc tracking phenomena, wiring system design, insulation constructions, and system protection. Presentation materials provided by the various speakers are included in this document.

  10. Web-Altairis: An Internet-Enabled Ground System

    NASA Technical Reports Server (NTRS)

    Miller, Phil; Coleman, Jason; Gemoets, Darren; Hughes, Kevin

    2000-01-01

    This paper describes Web-Altairis, an Internet-enabled ground system software package funded by the Advanced Automation and Architectures Branch (Code 588) of NASA's Goddard Space Flight Center. Web-Altairis supports the trend towards "lights out" ground systems, where the control center is unattended and problems are resolved by remote operators. This client/server software runs on most popular platforms and provides for remote data visualization using the rich functionality of the VisAGE toolkit. Web-Altairis also supports satellite commanding over the Internet. This paper describes the structure of Web-Altairis and VisAGE, the underlying technologies, the provisions for security, and our experiences in developing and testing the software.

  11. Regulation of cellulase expression, sporulation, and morphogenesis by velvet family proteins in Trichoderma reesei.

    PubMed

    Liu, Kuimei; Dong, Yanmei; Wang, Fangzhong; Jiang, Baojie; Wang, Mingyu; Fang, Xu

    2016-01-01

    Homologs of the velvet protein family are encoded by the ve1, vel2, and vel3 genes in Trichoderma reesei. To test their regulatory functions, the velvet protein-coding genes were disrupted, generating Δve1, Δvel2, and Δvel3 strains. The phenotypic features of these strains were examined to identify their functions in morphogenesis, sporulation, and cellulase expression. The three velvet-deficient strains produced more hyphal branches, indicating that velvet family proteins participate in the morphogenesis in T. reesei. Deletion of ve1 and vel3 did not affect biomass accumulation, while deletion of vel2 led to a significantly hampered growth when cellulose was used as the sole carbon source in the medium. The deletion of either ve1 or vel2 led to the sharp decrease of sporulation as well as a global downregulation of cellulase-coding genes. In contrast, although the expression of cellulase-coding genes of the ∆vel3 strain was downregulated in the dark, their expression in light condition was unaffected. Sporulation was hampered in the ∆vel3 strain. These results suggest that Ve1 and Vel2 play major roles, whereas Vel3 plays a minor role in sporulation, morphogenesis, and cellulase expression.

  12. GEOtop, a model with coupled water and energy budgets and non linear hydrological interactions. (Invited)

    NASA Astrophysics Data System (ADS)

    Endrizzi, S.; Gruber, S.; Dall'Amico, M.; Rigon, R.

    2013-12-01

    This contribution describes the new version of GEOtop which emerges after almost eight years of development from the original version. GEOtop now integrate the 3D Richards equation with a new numerical method; improvements were made on the treatment of surface waters by using the shallow water equation. The freezing-soil module was greatly improved, and the evapotranspiration -vegetation modelling is now based on a double layer scheme. Here we discuss the rational of each choice that was made, and we compare the differences between the actual solutions and the old solutions. In doing we highlight the issues that we faced during the development, including the trade-off between complexity and simplicity of the code, the requirements of a shared development, the different branches that were opened during the evolution of the code, and why we think that a code like GEOtop is indeed necessary. Models where the hydrological cycle is simplified can be built on the base of perceptual models that neglects some fundamental aspects of the hydrological processes, of which some examples are presented. At the same time, also process-based models like GEOtop can indeed neglect some fundamental process: but this is made evident with the comparison with measurements, especially when data are imposed ex-ante, instead than calibrated.

  13. Towards a next generation open-source video codec

    NASA Astrophysics Data System (ADS)

    Bankoski, Jim; Bultje, Ronald S.; Grange, Adrian; Gu, Qunshan; Han, Jingning; Koleszar, John; Mukherjee, Debargha; Wilkins, Paul; Xu, Yaowu

    2013-02-01

    Google has recently been developing a next generation opensource video codec called VP9, as part of the experimental branch of the libvpx repository included in the WebM project (http://www.webmproject.org/). Starting from the VP8 video codec released by Google in 2010 as the baseline, a number of enhancements and new tools have been added to improve the coding efficiency. This paper provides a technical overview of the current status of this project along with comparisons and other stateoftheart video codecs H. 264/AVC and HEVC. The new tools that have been added so far include: larger prediction block sizes up to 64x64, various forms of compound INTER prediction, more modes for INTRA prediction, ⅛pel motion vectors and 8tap switchable subpel interpolation filters, improved motion reference generation and motion vector coding, improved entropy coding and framelevel entropy adaptation for various symbols, improved loop filtering, incorporation of Asymmetric Discrete Sine Transforms and larger 16x16 and 32x32 DCTs, frame level segmentation to group similar areas together, etc. Other tools and various bitstream features are being actively worked on as well. The VP9 bitstream is expected to be finalized by earlyto mid2013. Results show VP9 to be quite competitive in performance with mainstream stateoftheart codecs.

  14. TIMEDELN: A programme for the detection and parametrization of overlapping resonances using the time-delay method

    NASA Astrophysics Data System (ADS)

    Little, Duncan A.; Tennyson, Jonathan; Plummer, Martin; Noble, Clifford J.; Sunderland, Andrew G.

    2017-06-01

    TIMEDELN implements the time-delay method of determining resonance parameters from the characteristic Lorentzian form displayed by the largest eigenvalues of the time-delay matrix. TIMEDELN constructs the time-delay matrix from input K-matrices and analyses its eigenvalues. This new version implements multi-resonance fitting and may be run serially or as a high performance parallel code with three levels of parallelism. TIMEDELN takes K-matrices from a scattering calculation, either read from a file or calculated on a dynamically adjusted grid, and calculates the time-delay matrix. This is then diagonalized, with the largest eigenvalue representing the longest time-delay experienced by the scattering particle. A resonance shows up as a characteristic Lorentzian form in the time-delay: the programme searches the time-delay eigenvalues for maxima and traces resonances when they pass through different eigenvalues, separating overlapping resonances. It also performs the fitting of the calculated data to the Lorentzian form and outputs resonance positions and widths. Any remaining overlapping resonances can be fitted jointly. The branching ratios of decay into the open channels can also be found. The programme may be run serially or in parallel with three levels of parallelism. The parallel code modules are abstracted from the main physics code and can be used independently.

  15. CTF (Subchannel) Calculations and Validation L3:VVI.H2L.P15.01

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

    Gordon, Natalie

    The goal of the Verification and Validation Implementation (VVI) High to Low (Hi2Lo) process is utilizing a validated model in a high resolution code to generate synthetic data for improvement of the same model in a lower resolution code. This process is useful in circumstances where experimental data does not exist or it is not sufficient in quantity or resolution. Data from the high-fidelity code is treated as calibration data (with appropriate uncertainties and error bounds) which can be used to train parameters that affect solution accuracy in the lower-fidelity code model, thereby reducing uncertainty. This milestone presents a demonstrationmore » of the Hi2Lo process derived in the VVI focus area. The majority of the work performed herein describes the steps of the low-fidelity code used in the process with references to the work detailed in the companion high-fidelity code milestone (Reference 1). The CASL low-fidelity code used to perform this work was Cobra Thermal Fluid (CTF) and the high-fidelity code was STAR-CCM+ (STAR). The master branch version of CTF (pulled May 5, 2017 – Reference 2) was utilized for all CTF analyses performed as part of this milestone. The statistical and VVUQ components of the Hi2Lo framework were performed using Dakota version 6.6 (release date May 15, 2017 – Reference 3). Experimental data from Westinghouse Electric Company (WEC – Reference 4) was used throughout the demonstrated process to compare with the high-fidelity STAR results. A CTF parameter called Beta was chosen as the calibration parameter for this work. By default, Beta is defined as a constant mixing coefficient in CTF and is essentially a tuning parameter for mixing between subchannels. Since CTF does not have turbulence models like STAR, Beta is the parameter that performs the most similar function to the turbulence models in STAR. The purpose of the work performed in this milestone is to tune Beta to an optimal value that brings the CTF results closer to those measured in the WEC experiments.« less

  16. Reproducibility and Transparency in Ocean-Climate Modeling

    NASA Astrophysics Data System (ADS)

    Hannah, N.; Adcroft, A.; Hallberg, R.; Griffies, S. M.

    2015-12-01

    Reproducibility is a cornerstone of the scientific method. Within geophysical modeling and simulation achieving reproducibility can be difficult, especially given the complexity of numerical codes, enormous and disparate data sets, and variety of supercomputing technology. We have made progress on this problem in the context of a large project - the development of new ocean and sea ice models, MOM6 and SIS2. Here we present useful techniques and experience.We use version control not only for code but the entire experiment working directory, including configuration (run-time parameters, component versions), input data and checksums on experiment output. This allows us to document when the solutions to experiments change, whether due to code updates or changes in input data. To avoid distributing large input datasets we provide the tools for generating these from the sources, rather than provide raw input data.Bugs can be a source of non-determinism and hence irreproducibility, e.g. reading from or branching on uninitialized memory. To expose these we routinely run system tests, using a memory debugger, multiple compilers and different machines. Additional confidence in the code comes from specialised tests, for example automated dimensional analysis and domain transformations. This has entailed adopting a code style where we deliberately restrict what a compiler can do when re-arranging mathematical expressions.In the spirit of open science, all development is in the public domain. This leads to a positive feedback, where increased transparency and reproducibility makes using the model easier for external collaborators, who in turn provide valuable contributions. To facilitate users installing and running the model we provide (version controlled) digital notebooks that illustrate and record analysis of output. This has the dual role of providing a gross, platform-independent, testing capability and a means to documents model output and analysis.

  17. ROS Hexapod

    NASA Technical Reports Server (NTRS)

    Davis, Kirsch; Bankieris, Derek

    2016-01-01

    As an intern project for NASA Johnson Space Center (JSC), my job was to familiarize myself and operate a Robotics Operating System (ROS). The project outcome converted existing software assets into ROS using nodes, enabling a robotic Hexapod to communicate to be functional and controlled by an existing PlayStation 3 (PS3) controller. Existing control algorithms and current libraries have no ROS capabilities within the Hexapod C++ source code when the internship started, but that has changed throughout my internship. Conversion of C++ codes to ROS enabled existing code to be compatible with ROS, and is now controlled using an existing PS3 controller. Furthermore, my job description was to design ROS messages and script programs that enabled assets to participate in the ROS ecosystem by subscribing and publishing messages. Software programming source code is written in directories using C++. Testing of software assets included compiling code within the Linux environment using a terminal. The terminal ran the code from a directory. Several problems occurred while compiling code and the code would not compile. So modifying code to where C++ can read the source code were made. Once the code was compiled and ran, the code was uploaded to Hexapod and then controlled by a PS3 controller. The project outcome has the Hexapod fully functional and compatible with ROS and operates using the PlayStation 3 controller. In addition, an open source software (IDE) Arduino board will be integrated into the ecosystem with designing circuitry on a breadboard to add additional behavior with push buttons, potentiometers and other simple elements in the electrical circuitry. Other projects with the Arduino will be a GPS module, digital clock that will run off 22 satellites to show accurate real time using a GPS signal and an internal patch antenna to communicate with satellites. In addition, this internship experience has led me to pursue myself to learn coding more efficiently and effectively to write, subscribe and publish my own source code in different programming languages. With some familiarity with software programming, it will enhance my skills in the electrical engineering field. In contrast, my experience here at JSC with the Simulation and Graphics Branch (ER7) has led me to take my coding skill to be more proficient to increase my knowledge in software programming, and also enhancing my skills in ROS. This knowledge will be taken back to my university to implement coding in a school project that will use source coding and ROS to work on the PR2 robot which is controlled by ROS software. My skills learned here will be used to integrate messages to subscribe and publish ROS messages to a PR2 robot. The PR2 robot will be controlled by an existing PS3 controller by changing C++ coding to subscribe and publish messages to ROS. Overall the skills that were obtained here will not be lost, but increased.

  18. Evaluation of the effects of Middleton's stormwater-management activities on streamflow and water-quality characteristics of Pheasant Branch, Dane County, Wisconsin 1975-2008

    USGS Publications Warehouse

    Gebert, Warren A.; Rose, William J.; Garn, Herbert S.

    2012-01-01

    Few long-term data sets are available for evaluating the effects of urban stormwater-management practices. Over 30 years of data are available for evaluating the effectiveness of such practices by the city of Middleton, Wis. Analysis of streamflow and water-quality data collected on Pheasant Branch, demonstrates the relation between the changes in the watershed to the structural and nonstructural best management practices put in place during 1975-2008. A comparison of the data from Pheasant Branch with streamflow and water-quality data (suspended sediment and total phosphorus) collected at other nearby streams was made to assist in the determination of the possible causes of the changes in Pheasant Branch. Based on 34 years of streamflow data collected at the Pheasant Branch at Middleton streamflow-gaging station, flood peak discharges increased 37 percent for the 2-year flood and 83 percent for the 100-year flood. A comparison of data for the same period from an adjacent rural stream, Black Earth at Black Earth had a 43 percent increase in the 2-year flood peak discharge and a 140-percent increase in the 100-year flood peak discharge. Because the flood peak discharges on Pheasant Branch have not increased as much as Black Earth Creek it appears that the stormwater management practices have been successful in mitigating the effects of urbanization. Generally urbanization results in increased flood peak discharges. The overall increase in flood peak discharges seen in both streams probably is the result of the substantial increase in precipitation during the study period. Average annual runoff in Pheasant Branch has also been increasing due to increasing average annual precipitation and urbanization. The stormwater-management practices in Middleton have been successful in decreasing the suspended-sediment and total phosphorus loads to Lake Mendota from the Pheasant Branch watershed. These loads decreased in spite of increased annual runoff and flood peaks, which are often expected to produce higher sediment and phosphorus loads. The biggest decreases in sediment and phosphorus loads occurred after 2001 when a large detention pond, the Confluence Pond, began operation. Since 2001, the annual suspended-sediment load has decreased from 2,650 tons per year to 1,450 tons per year for a 45-percent decrease. The annual total phosphorus load has decreased from 12,200 pounds per year to 6,300 pounds per year for a 48-percent decrease. A comparison of Pheasant Branch at Middleton with two other streams, Spring Harbor Storm Sewer and Yahara River at Windsor, that drain into Lake Mendota shows that suspended-sediment and total phosphorus load decreases were greatest at Pheasant Branch at Middleton. Prior to the construction of the Confluence Pond, annual suspended-sediment yield and total phosphorus yield from Pheasant Branch watershed was the largest of the three watersheds. After 2001, suspended-sediment yield was greatest at Spring Harbor Storm Sewer, and lowest at Yahara at Windsor; annual total phosphorus yield was greater at Yahara River at Windsor than that of Pheasant Branch. The stormwater-quality plan for Middleton shows that the city has met the present State of Wisconsin Administrative Code chap. NR216/NR151 requirements of reducing total suspended solids by 20 percent for the developed area in Middleton. In addition, the city already has met the 40-percent reduction in total suspended solids required by 2013. Snow and ice melt runoff from road surfaces and parking lots following winter storms can effect water quality because the runoff contains varying amounts of road salt. To evaluate the effect of road deicing on stream water quality in Pheasant Branch, specific conductance and chloride were monitored during two winter seasons. The maximum estimated concentration of chloride during the monitoring period was 931 milligrams per liter, which exceeded the U.S. Environmental Protection Agency acute criterion of 860 milligrams per liter. Chloride concentrations exceeded the U.S. Environmental Protection Agency chronic criterion of 230 milligrams per liter for at least 10 days during February and March 2007 and for 45 days during the 2007-8 winter seasons. The total sodium chloride load for the monitoring period was 1,720 tons and the largest sodium chloride load occurred in March and April of each year.

  19. Numerical Modeling of Conjugate Heat Transfer in Fluid Network

    NASA Technical Reports Server (NTRS)

    Majumdar, Alok

    2004-01-01

    Fluid network modeling with conjugate heat transfer has many applications in Aerospace engineering. In modeling unsteady flow with heat transfer, it is important to know the variation of wall temperature in time and space to calculate heat transfer between solid to fluid. Since wall temperature is a function of flow, a coupled analysis of temperature of solid and fluid is necessary. In cryogenic applications, modeling of conjugate heat transfer is of great importance to correctly predict boil-off rate in propellant tanks and chill down of transfer lines. In TFAWS 2003, the present author delivered a paper to describe a general-purpose computer program, GFSSP (Generalized Fluid System Simulation Program). GFSSP calculates flow distribution in complex flow circuit for compressible/incompressible, with or without heat transfer or phase change in all real fluids or mixtures. The flow circuit constitutes of fluid nodes and branches. The mass, energy and specie conservation equations are solved at the nodes where as momentum conservation equations are solved at the branches. The proposed paper describes the extension of GFSSP to model conjugate heat transfer. The network also includes solid nodes and conductors in addition to fluid nodes and branches. The energy conservation equations for solid nodes solves to determine the temperatures of the solid nodes simultaneously with all conservation equations governing fluid flow. The numerical scheme accounts for conduction, convection and radiation heat transfer. The paper will also describe the applications of the code to predict chill down of cryogenic transfer line and boil-off rate of cryogenic propellant storage tank.

  20. Adaptive evolution in the Arabidopsis MADS-box gene family inferred from its complete resolved phylogeny

    PubMed Central

    Martínez-Castilla, León Patricio; Alvarez-Buylla, Elena R.

    2003-01-01

    Gene duplication is a substrate of evolution. However, the relative importance of positive selection versus relaxation of constraints in the functional divergence of gene copies is still under debate. Plant MADS-box genes encode transcriptional regulators key in various aspects of development and have undergone extensive duplications to form a large family. We recovered 104 MADS sequences from the Arabidopsis genome. Bayesian phylogenetic trees recover type II lineage as a monophyletic group and resolve a branching sequence of monophyletic groups within this lineage. The type I lineage is comprised of several divergent groups. However, contrasting gene structure and patterns of chromosomal distribution between type I and II sequences suggest that they had different evolutionary histories and support the placement of the root of the gene family between these two groups. Site-specific and site-branch analyses of positive Darwinian selection (PDS) suggest that different selection regimes could have affected the evolution of these lineages. We found evidence for PDS along the branch leading to flowering time genes that have a direct impact on plant fitness. Sites with high probabilities of having been under PDS were found in the MADS and K domains, suggesting that these played important roles in the acquisition of novel functions during MADS-box diversification. Detected sites are targets for further experimental analyses. We argue that adaptive changes in MADS-domain protein sequences have been important for their functional divergence, suggesting that changes within coding regions of transcriptional regulators have influenced phenotypic evolution of plants. PMID:14597714

  1. Multidisciplinary Optimization Branch Experience Using iSIGHT Software

    NASA Technical Reports Server (NTRS)

    Padula, S. L.; Korte, J. J.; Dunn, H. J.; Salas, A. O.

    1999-01-01

    The Multidisciplinary Optimization (MDO) Branch at NASA Langley Research Center is investigating frameworks for supporting multidisciplinary analysis and optimization research. An optimization framework call improve the design process while reducing time and costs. A framework provides software and system services to integrate computational tasks and allows the researcher to concentrate more on the application and less on the programming details. A framework also provides a common working environment and a full range of optimization tools, and so increases the productivity of multidisciplinary research teams. Finally, a framework enables staff members to develop applications for use by disciplinary experts in other organizations. Since the release of version 4.0, the MDO Branch has gained experience with the iSIGHT framework developed by Engineous Software, Inc. This paper describes experiences with four aerospace applications: (1) reusable launch vehicle sizing, (2) aerospike nozzle design, (3) low-noise rotorcraft trajectories, and (4) acoustic liner design. All applications have been successfully tested using the iSIGHT framework, except for the aerospike nozzle problem, which is in progress. Brief overviews of each problem are provided. The problem descriptions include the number and type of disciplinary codes, as well as all estimate of the multidisciplinary analysis execution time. In addition, the optimization methods, objective functions, design variables, and design constraints are described for each problem. Discussions on the experience gained and lessons learned are provided for each problem. These discussions include the advantages and disadvantages of using the iSIGHT framework for each case as well as the ease of use of various advanced features. Potential areas of improvement are identified.

  2. The use of three-parameter rating table lookup programs, RDRAT and PARM3, in hydraulic flow models

    USGS Publications Warehouse

    Sanders, C.L.

    1995-01-01

    Subroutines RDRAT and PARM3 enable computer programs such as the BRANCH open-channel unsteady-flow model to route flows through or over combinations of critical-flow sections, culverts, bridges, road- overflow sections, fixed spillways, and(or) dams. The subroutines also obstruct upstream flow to simulate operation of flapper-type tide gates. A multiplier can be applied by date and time to simulate varying numbers of tide gates being open or alternative construction scenarios for multiple culverts. The subroutines use three-parameter (headwater, tailwater, and discharge) rating table lookup methods. These tables may be manually prepared using other programs that do step-backwater computations or compute flow through bridges and culverts or over dams. The subroutine, therefore, precludes the necessity of incorporating considerable hydraulic computational code into the client program, and provides complete flexibility for users of the model for routing flow through almost any affixed structure or combination of structures. The subroutines are written in Fortran 77 language, and have minimal exchange of information with the BRANCH model or other possible client programs. The report documents the interpolation methodology, data input requirements, and software.

  3. High quality draft genome sequences of Pseudomonas fulva DSM 17717 T, Pseudomonas parafulva DSM 17004 T and Pseudomonas cremoricolorata DSM 17059 T type strains

    DOE PAGES

    Peña, Arantxa; Busquets, Antonio; Gomila, Margarita; ...

    2016-09-01

    Pseudomonas has the highest number of species out of any genus of Gram-negative bacteria and is phylogenetically divided into several groups. The Pseudomonas putida phylogenetic branch includes at least 13 species of environmental and industrial interest, plant-associated bacteria, insect pathogens, and even some members that have been found in clinical specimens. In the context of the Genomic Encyclopedia of Bacteria and Archaea project, we present the permanent, high-quality draft genomes of the type strains of 3 taxonomically and ecologically closely related species in the Pseudomonas putida phylogenetic branch: Pseudomonas fulva DSM 17717 T, Pseudomonas parafulva DSM 17004 T and Pseudomonasmore » cremoricolorata DSM 17059T. All three genomes are comparable in size (4.6-4.9Mb), with 4,119-4,459 protein-coding genes. Average nucleotide identity based on BLAST comparisons and digital genome-to-genome distance calculations are in good agreement with experimental DNA-DNA hybridization results. The genome sequences presented here will be very helpful in elucidating the taxonomy, phylogeny and evolution of the Pseudomonas putida species complex.« less

  4. The role of cold plasma and its composition on the growth of electromagnetic ion cyclotron waves in the inner magnetosphere

    NASA Astrophysics Data System (ADS)

    Snelling, J. M.; Johnson, J.; Engebretson, M. J.; Kim, E. H.; Tian, S.

    2017-12-01

    While it is currently well accepted that the free energy for growth of electromagnetic ion cyclotron (EMIC) waves in Earth's magnetosphere comes from unstable configurations of hot anisotropic ions that are injected into the ring current, several questions remain about what controls the instability. A recent study of the occurrence of EMIC waves relative to the plasmapause in Vallen Probes Data showed that plasma density gradients or enhancements were not the dominant factor in determining the site of EMIC wave generation [Tetrick et al. 2017]. However, the factors that control wave growth on each of the branches are not fully understood. For example, in some cases, the measured anisotropy is not adequate to explain local instability, and the relative importance of the density and composition of a cold plasma population is still uncertain. Several intervals of EMIC wave activity are analyzed to determine the role of a cold population in driving instability on each of the wave branches. This study utilizes the WHAMP (Waves in Homogeneous Anisotropic Magnetized Plasma) stability code with plasma distributions optimized to fit the observed distributions including temperature anisotropy, loss cone, and ring beam populations.

  5. High quality draft genome sequences of Pseudomonas fulva DSM 17717 T, Pseudomonas parafulva DSM 17004 T and Pseudomonas cremoricolorata DSM 17059 T type strains

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

    Peña, Arantxa; Busquets, Antonio; Gomila, Margarita

    Pseudomonas has the highest number of species out of any genus of Gram-negative bacteria and is phylogenetically divided into several groups. The Pseudomonas putida phylogenetic branch includes at least 13 species of environmental and industrial interest, plant-associated bacteria, insect pathogens, and even some members that have been found in clinical specimens. In the context of the Genomic Encyclopedia of Bacteria and Archaea project, we present the permanent, high-quality draft genomes of the type strains of 3 taxonomically and ecologically closely related species in the Pseudomonas putida phylogenetic branch: Pseudomonas fulva DSM 17717 T, Pseudomonas parafulva DSM 17004 T and Pseudomonasmore » cremoricolorata DSM 17059T. All three genomes are comparable in size (4.6-4.9Mb), with 4,119-4,459 protein-coding genes. Average nucleotide identity based on BLAST comparisons and digital genome-to-genome distance calculations are in good agreement with experimental DNA-DNA hybridization results. The genome sequences presented here will be very helpful in elucidating the taxonomy, phylogeny and evolution of the Pseudomonas putida species complex.« less

  6. Extension of the TDCR model to compute counting efficiencies for radionuclides with complex decay schemes.

    PubMed

    Kossert, K; Cassette, Ph; Carles, A Grau; Jörg, G; Gostomski, Christroph Lierse V; Nähle, O; Wolf, Ch

    2014-05-01

    The triple-to-double coincidence ratio (TDCR) method is frequently used to measure the activity of radionuclides decaying by pure β emission or electron capture (EC). Some radionuclides with more complex decays have also been studied, but accurate calculations of decay branches which are accompanied by many coincident γ transitions have not yet been investigated. This paper describes recent extensions of the model to make efficiency computations for more complex decay schemes possible. In particular, the MICELLE2 program that applies a stochastic approach of the free parameter model was extended. With an improved code, efficiencies for β(-), β(+) and EC branches with up to seven coincident γ transitions can be calculated. Moreover, a new parametrization for the computation of electron stopping powers has been implemented to compute the ionization quenching function of 10 commercial scintillation cocktails. In order to demonstrate the capabilities of the TDCR method, the following radionuclides are discussed: (166m)Ho (complex β(-)/γ), (59)Fe (complex β(-)/γ), (64)Cu (β(-), β(+), EC and EC/γ) and (229)Th in equilibrium with its progenies (decay chain with many α, β and complex β(-)/γ transitions). © 2013 Published by Elsevier Ltd.

  7. Double-bromo and extraterminal (BET) domain proteins regulate dendrite morphology and mechanosensory function

    PubMed Central

    Bagley, Joshua A.; Yan, Zhiqiang; Zhang, Wei; Wildonger, Jill

    2014-01-01

    A complex array of genetic factors regulates neuronal dendrite morphology. Epigenetic regulation of gene expression represents a plausible mechanism to control pathways responsible for specific dendritic arbor shapes. By studying the Drosophila dendritic arborization (da) neurons, we discovered a role of the double-bromodomain and extraterminal (BET) family proteins in regulating dendrite arbor complexity. A loss-of-function mutation in the single Drosophila BET protein encoded by female sterile 1 homeotic [fs(1)h] causes loss of fine, terminal dendritic branches. Moreover, fs(1)h is necessary for the induction of branching caused by a previously identified transcription factor, Cut (Ct), which regulates subtype-specific dendrite morphology. Finally, disrupting fs(1)h function impairs the mechanosensory response of class III da sensory neurons without compromising the expression of the ion channel NompC, which mediates the mechanosensitive response. Thus, our results identify a novel role for BET family proteins in regulating dendrite morphology and a possible separation of developmental pathways specifying neural cell morphology and ion channel expression. Since the BET proteins are known to bind acetylated histone tails, these results also suggest a role of epigenetic histone modifications and the “histone code,” in regulating dendrite morphology. PMID:25184680

  8. Molecular Cloning, Expression Profile and 5′ Regulatory Region Analysis of Two Chemosensory Protein Genes from the Diamondback Moth, Plutella xylostella

    PubMed Central

    Gong, Liang; Zhong, Guo-Hua; Hu, Mei-Ying; Luo, Qian; Ren, Zhen-Zhen

    2010-01-01

    Chemosensory proteins play an important role in transporting chemical compounds to their receptors on dendrite membranes. In this study, two full-length cDNA codings for chemosensory proteins of Plutella xylostella (Lepidoptera: Plutellidae) were obtained by RACE-PCR. PxylCSP3 and Pxyl-CSP4, with GenBank accession numbers ABM92663 and ABM92664, respectively, were cloned and sequenced. The gene sequences both consisted of three exons and two introns. RT-PCR analysis showed that Pxyl-CSP3 and Pxyl-CSP4 had different expression patterns in the examined developmental stages, but were expressed in all larval stages. Phylogenetic analysis indicated that lepidopteran insects consist of three branches, and Pxyl-CSP3 and Pxyl-CSP4 belong to different branches. The 5′regulatory regions of Pxyl-CSP3 and Pxyl-CSP4 were isolated and analyzed, and the results consist of not only the core promoter sequences (TATA-box), but also several transcriptional elements (BR-C Z4, Hb, Dfd, CF2-II, etc.). This study provides clues to better understanding the various physiological functions of CSPs in P. xylostella and other insects. PMID:21073345

  9. Emerging branches of the N-end rule pathways are revealing the sequence complexities of N-termini dependent protein degradation.

    PubMed

    Eldeeb, Mohamed A; Leitao, Luana C A; Fahlman, Richard P

    2018-06-01

    The N-end rule links the identity of the N-terminal amino acid of a protein to its in vivo half-life, as some N-terminal residues confer metabolic instability to a protein via their recognition by the cellular machinery that targets them for degradation. Since its discovery, the N-end rule has generally been defined as set of rules of whether an N-terminal residue is stabilizing or not. However, recent studies are revealing that the N-terminal code of amino acids conferring protein instability is more complex than previously appreciated, as recent investigations are revealing that the identity of adjoining downstream residues can also influence the metabolic stability of N-end rule substrate. This is exemplified by the recent discovery of a new branch of N-end rule pathways that target proteins bearing N-terminal proline. In addition, recent investigations are demonstrating that the molecular machinery in N-termini dependent protein degradation may also target proteins for lysosomal degradation, in addition to proteasome-dependent degradation. Herein, we describe some of the recent advances in N-end rule pathways and discuss some of the implications regarding the emerging additional sequence requirements.

  10. Investigating the Consistency of Stellar Evolution Models with Globular Cluster Observations via the Red Giant Branch Bump

    NASA Astrophysics Data System (ADS)

    Joyce, Meridith; Chaboyer, Brian

    2016-01-01

    Synthetic Red Giant Branch Bump (RGBB) magnitudes are generated with the most recent theoretical stellar evolution models computed with the Dartmouth Stellar Evolution Program (DSEP) code. They are compared to the observational work of Nataf et al. (2013), who present RGBB magnitudes for 72 globular clusters. A DSEP model using a chemical composition with enhanced α capture [α/Fe] =+0.4 and an age of 13 Gyr shows agreement with observations over metallicities ranging from [Fe/H] = 0 to [Fe/H] ≈-1.5, with discrepancy emerging at lower metallicities. A model-independent, density-based outlier detection routine known as the Local Outlying Factor (LOF) algorithm is applied to the observations in order to identify clusters that deviate most in magnitude-metallicity space from the bulk of the observations. Our model's fit is scrutinized with a series of χ^2 routines performed on subsets of the data from which highly anomalous clusters have been selectively removed based on LOF identification. In particular, NGCs 6254, 6681, 6218, and 1904 are tagged recurrently as outliers. The effects of systematic and non-systematic error in metallicity are assessed, and the robustness of observational error bars is investigated.

  11. The Use of Quality Benchmarking in Assessing Web Resources for the Dermatology Virtual Branch Library of the National electronic Library for Health (NeLH)

    PubMed Central

    Roudsari, AV; Gordon, C; Gray, JA Muir

    2001-01-01

    Background In 1998, the U.K. National Health Service Information for Health Strategy proposed the implementation of a National electronic Library for Health to provide clinicians, healthcare managers and planners, patients and the public with easy, round the clock access to high quality, up-to-date electronic information on health and healthcare. The Virtual Branch Libraries are among the most important components of the National electronic Library for Health . They aim at creating online knowledge based communities, each concerned with some specific clinical and other health-related topics. Objectives This study is about the envisaged Dermatology Virtual Branch Libraries of the National electronic Library for Health . It aims at selecting suitable dermatology Web resources for inclusion in the forthcoming Virtual Branch Libraries after establishing preliminary quality benchmarking rules for this task. Psoriasis, being a common dermatological condition, has been chosen as a starting point. Methods Because quality is a principal concern of the National electronic Library for Health, the study includes a review of the major quality benchmarking systems available today for assessing health-related Web sites. The methodology of developing a quality benchmarking system has been also reviewed. Aided by metasearch Web tools, candidate resources were hand-selected in light of the reviewed benchmarking systems and specific criteria set by the authors. Results Over 90 professional and patient-oriented Web resources on psoriasis and dermatology in general are suggested for inclusion in the forthcoming Dermatology Virtual Branch Libraries. The idea of an all-in knowledge-hallmarking instrument for the National electronic Library for Health is also proposed based on the reviewed quality benchmarking systems. Conclusions Skilled, methodical, organized human reviewing, selection and filtering based on well-defined quality appraisal criteria seems likely to be the key ingredient in the envisaged National electronic Library for Health service. Furthermore, by promoting the application of agreed quality guidelines and codes of ethics by all health information providers and not just within the National electronic Library for Health, the overall quality of the Web will improve with time and the Web will ultimately become a reliable and integral part of the care space. PMID:11720947

  12. Sequence and RT-PCR expression analysis of two peroxidases from Arabidopsis thaliana belonging to a novel evolutionary branch of plant peroxidases.

    PubMed

    Kjaersgård, I V; Jespersen, H M; Rasmussen, S K; Welinder, K G

    1997-03-01

    cDNA clones encoding two new Arabidopsis thaliana peroxidases, ATP 1a and ATP 2a, have been identified by searching the Arabidopsis database of expressed sequence tags (dbEST). They represent a novel branch of hitherto uncharacterized plant peroxidases which is only 35% identical in amino acid sequence to the well characterized group of basic plant peroxidases represented by the horseradish (Armoracia rusticana) isoperoxidases HRP C, HRP E5 and the similar Arabidopsis isoperoxidases ATP Ca, ATP Cb, and ATP Ea. However ATP 1a is 87% identical in amino acid sequence to a peroxidase encoded by an mRNA isolated from cotton (Gossypium hirsutum). As cotton and Arabidopsis belong to rather diverse families (Malvaceae and Crucifereae, respectively), in contrast with Arabidopsis and horseradish (both Crucifereae), the high degree of sequence identity indicates that this novel type of peroxidase, albeit of unknown function, is likely to be widespread in plant species. The atp 1 and atp 2 types of cDNA sequences were the most redundant among the 28 different isoperoxidases identified among about 200 peroxidase encoding ESTs. Interestingly, 8 out of totally 38 EST sequences coding for ATP 1 showed three identical nucleotide substitutions. This variant form is designated ATP 1b. Similarly, six out of totally 16 EST sequences coding for ATP 2 showed a number of deletions and nucleotide changes. This variant form is designated ATP 2b. The selected EST clones are full-length and contain coding regions of 993 nucleotides for atp 1a, and 984 nucleotides for atp 2a. These regions show 61% DNA sequence identity. The predicted mature proteins ATP 1a, and ATP 2a are 57% identical in sequence and contain the structurally and functionally important residues, characteristic of the plant peroxidase superfamily. However, they do show two differences of importance to peroxidase catalysis: (1) the asparagine residue linked with the active site distal histidine via hydrogen bonding is absent; (2) an N-glycosylation site is located right at the entrance to the heme channel. The reverse transcriptase polymerase chain reaction (RT-PCR) was used to identify mRNAs coding for ATP 1a/b and ATP 2a/b in germinating seeds, seedlings, roots, leaves, stems, flowers and cell suspension culture using elongation factor 1alpha (EF-1alpha) for the first time as a positive control. Both mRNAs were transcribed at levels comparable to EF-1alpha in all plant tissues investigated which were more than two days old, and in cell suspension culture. In addition, the mRNA coding for ATP 1a/b was found in two day old germinating seeds. The abundant transcription of ATP 1a/b and ATP 2a/b is in line with their many entries in dbEST, and indicates essential roles for these novel peroxidases.

  13. Time-Shifted Boundary Conditions Used for Navier-Stokes Aeroelastic Solver

    NASA Technical Reports Server (NTRS)

    Srivastava, Rakesh

    1999-01-01

    Under the Advanced Subsonic Technology (AST) Program, an aeroelastic analysis code (TURBO-AE) based on Navier-Stokes equations is currently under development at NASA Lewis Research Center s Machine Dynamics Branch. For a blade row, aeroelastic instability can occur in any of the possible interblade phase angles (IBPA s). Analyzing small IBPA s is very computationally expensive because a large number of blade passages must be simulated. To reduce the computational cost of these analyses, we used time shifted, or phase-lagged, boundary conditions in the TURBO-AE code. These conditions can be used to reduce the computational domain to a single blade passage by requiring the boundary conditions across the passage to be lagged depending on the IBPA being analyzed. The time-shifted boundary conditions currently implemented are based on the direct-store method. This method requires large amounts of data to be stored over a period of the oscillation cycle. On CRAY computers this is not a major problem because solid-state devices can be used for fast input and output to read and write the data onto a disk instead of storing it in core memory.

  14. Digitalization Culture VS Archaeological Visualization: Integration of Pipelines and Open Issues

    NASA Astrophysics Data System (ADS)

    Cipriani, L.; Fantini, F.

    2017-02-01

    Scholars with different backgrounds have carried out extensive surveys centred on how 3D digital models, data acquisition and processing have changed over the years in fields of archaeology and architecture and more in general in the Cultural Heritage panorama: the current framework focused on reality-based modelling is then split in several branches: acquisition, communication and analysis of buildings (Pintus et alii, 2014). Despite the wide set of well-structured and all-encompassing surveys on the IT application in Cultural Heritage, several open issues still seem to be present, in particular once the purpose of digital simulacra is the one to fit with the "pre-informatics" legacy of architectural/archaeological representation (historical drawings with their graphic codes and aesthetics). Starting from a series of heterogeneous matters that came up studying two Italian UNESCO sites, this paper aims at underlining the importance of integrating different pipelines from different technological fields, in order to achieve multipurpose models, capable to comply with graphic codes of traditional survey, as well as semantic enrichment, and last but not least, data compression/portability and texture reliability under different lighting simulation.

  15. FPA Depot - Web Application

    NASA Technical Reports Server (NTRS)

    Avila, Edwin M. Martinez; Muniz, Ricardo; Szafran, Jamie; Dalton, Adam

    2011-01-01

    Lines of code (LOC) analysis is one of the methods used to measure programmer productivity and estimate schedules of programming projects. The Launch Control System (LCS) had previously used this method to estimate the amount of work and to plan development efforts. The disadvantage of using LOC as a measure of effort is that one can only measure 30% to 35% of the total effort of software projects involves coding [8]. In the application, instead of using the LOC we are using function point for a better estimation of hours in each software to develop. Because of these disadvantages, Jamie Szafran of the System Software Branch of Control And Data Systems (NE-C3) at Kennedy Space Canter developed a web application called Function Point Analysis (FPA) Depot. The objective of this web application is that the LCS software architecture team can use the data to more accurately estimate the effort required to implement customer requirements. This paper describes the evolution of the domain model used for function point analysis as project managers continually strive to generate more accurate estimates.

  16. Distribution of a Generic Mission Planning and Scheduling Toolkit for Astronomical Spacecraft

    NASA Technical Reports Server (NTRS)

    Kleiner, Steven C.

    1996-01-01

    Work is progressing as outlined in the proposal for this contract. A working planning and scheduling system has been documented and packaged and made available to the WIRE Small Explorer group at JPL, the FUSE group at JHU, the NASA/GSFC Laboratory for Astronomy and Solar Physics and the Advanced Planning and Scheduling Branch at STScI. The package is running successfully on the WIRE computer system. It is expected that the WIRE will reuse significant portions of the SWAS code in its system. This scheduling system itself was tested successfully against the spacecraft hardware in December 1995. A fully automatic scheduling module has been developed and is being added to the toolkit. In order to maximize reuse, the code is being reorganized during the current build into object-oriented class libraries. A paper describing the toolkit has been written and is included in the software distribution. We have experienced interference between the export and production versions of the toolkit. We will be requesting permission to reprogram funds in order to purchase a standalone PC onto which to offload the export version.

  17. A Procedure for Structural Weight Estimation of Single Stage to Orbit Launch Vehicles (Interim User's Manual)

    NASA Technical Reports Server (NTRS)

    Martinovic, Zoran N.; Cerro, Jeffrey A.

    2002-01-01

    This is an interim user's manual for current procedures used in the Vehicle Analysis Branch at NASA Langley Research Center, Hampton, Virginia, for launch vehicle structural subsystem weight estimation based on finite element modeling and structural analysis. The process is intended to complement traditional methods of conceptual and early preliminary structural design such as the application of empirical weight estimation or application of classical engineering design equations and criteria on one dimensional "line" models. Functions of two commercially available software codes are coupled together. Vehicle modeling and analysis are done using SDRC/I-DEAS, and structural sizing is performed with the Collier Research Corp. HyperSizer program.

  18. First NASA Workshop on Wiring for Space Applications

    NASA Technical Reports Server (NTRS)

    Hammond, Ahmad (Compiler); Stavnes, Mark W. (Compiler)

    1994-01-01

    This document contains the proceedings of the First NASA Workshop on Wiring for Space Applications held at NASA Lewis Research Center in Cleveland, OH, July 23-24, 1991. The workshop was sponsored by NASA Headquarters Code QE Office of Safety and Mission Quality, Technical Standards Division and hosted by the NASA Lewis Research Center, Power Technology Division, Electrical Components and Systems Branch. The workshop addressed key technology issues in the field of electrical power wiring for space applications. Speakers from government, industry and academia presented and discussed topics on arc tracking phenomena, wiring applications and requirements, and new candidate insulation materials and constructions. Presentation materials provided by the various speakers are included in this document.

  19. A new disclosure index for Non-Governmental Organizations

    PubMed Central

    Shabbir, Javid

    2018-01-01

    Website of Non-governmental organization (NGO) is a focal medium of sharing information in response to transparency demands and addressing trust deficits between stakeholders. Many researchers have proposed accountability approaches to measure information sharing trends through websites. This article discusses a new index to measure online disclosure trends along with the theoretical properties of the index and a practical application of data from NGOs working in Pakistan. The websites have been coded in 2016. Results show that NGOs with branch offices have better disclosure scores than single-office NGOs, and international NGOs score better than local NGOs. NGOs that are more often the subject of newspaper reports have better disclosure trends. PMID:29466397

  20. A proposed technique for the Venus balloon telemetry and Doppler frequency recovery

    NASA Technical Reports Server (NTRS)

    Jurgens, R. F.; Divsalar, D.

    1985-01-01

    A technique is proposed to accurately estimate the Doppler frequency and demodulate the digitally encoded telemetry signal that contains the measurements from balloon instruments. Since the data are prerecorded, one can take advantage of noncausal estimators that are both simpler and more computationally efficient than the usual closed-loop or real-time estimators for signal detection and carrier tracking. Algorithms for carrier frequency estimation subcarrier demodulation, bit and frame synchronization are described. A Viterbi decoder algorithm using a branch indexing technique has been devised to decode constraint length 6, rate 1/2 convolutional code that is being used by the balloon transmitter. These algorithms are memory efficient and can be implemented on microcomputer systems.

  1. Fluorine Abundances of AGB Stars in Stellar Clusters

    NASA Astrophysics Data System (ADS)

    Hren, A.; Lebzelter, T.; Aringer, B.; Hinkle, K. H.; Nowotny, W.

    2015-08-01

    We have measured the abundance of fluorine, [F/Fe], in a number of AGB stars in stellar clusters have correlated the results with their C/O ratios. This allows us to investigate the change in the fluorine abundance along the evolution on the giant branch. The target list includes primarily O-rich stars in three LMC globular clusters - NGC 1806, NGC 1846 and NGC 1978 - as well as Rup 106 and 47 Tuc in our Galaxy. The observational data were obtained with the PHOENIX spectrograph, and the COMA code was used for modelling the synthetic spectra. Within individual clusters, we find consistent [F/Fe] values at similar C/O for most of our target stars.

  2. Proceedings of the First NASA Formal Methods Symposium

    NASA Technical Reports Server (NTRS)

    Denney, Ewen (Editor); Giannakopoulou, Dimitra (Editor); Pasareanu, Corina S. (Editor)

    2009-01-01

    Topics covered include: Model Checking - My 27-Year Quest to Overcome the State Explosion Problem; Applying Formal Methods to NASA Projects: Transition from Research to Practice; TLA+: Whence, Wherefore, and Whither; Formal Methods Applications in Air Transportation; Theorem Proving in Intel Hardware Design; Building a Formal Model of a Human-Interactive System: Insights into the Integration of Formal Methods and Human Factors Engineering; Model Checking for Autonomic Systems Specified with ASSL; A Game-Theoretic Approach to Branching Time Abstract-Check-Refine Process; Software Model Checking Without Source Code; Generalized Abstract Symbolic Summaries; A Comparative Study of Randomized Constraint Solvers for Random-Symbolic Testing; Component-Oriented Behavior Extraction for Autonomic System Design; Automated Verification of Design Patterns with LePUS3; A Module Language for Typing by Contracts; From Goal-Oriented Requirements to Event-B Specifications; Introduction of Virtualization Technology to Multi-Process Model Checking; Comparing Techniques for Certified Static Analysis; Towards a Framework for Generating Tests to Satisfy Complex Code Coverage in Java Pathfinder; jFuzz: A Concolic Whitebox Fuzzer for Java; Machine-Checkable Timed CSP; Stochastic Formal Correctness of Numerical Algorithms; Deductive Verification of Cryptographic Software; Coloured Petri Net Refinement Specification and Correctness Proof with Coq; Modeling Guidelines for Code Generation in the Railway Signaling Context; Tactical Synthesis Of Efficient Global Search Algorithms; Towards Co-Engineering Communicating Autonomous Cyber-Physical Systems; and Formal Methods for Automated Diagnosis of Autosub 6000.

  3. Turbomachinery Forced Response Prediction System (FREPS): User's Manual

    NASA Technical Reports Server (NTRS)

    Morel, M. R.; Murthy, D. V.

    1994-01-01

    The turbomachinery forced response prediction system (FREPS), version 1.2, is capable of predicting the aeroelastic behavior of axial-flow turbomachinery blades. This document is meant to serve as a guide in the use of the FREPS code with specific emphasis on its use at NASA Lewis Research Center (LeRC). A detailed explanation of the aeroelastic analysis and its development is beyond the scope of this document, and may be found in the references. FREPS has been developed by the NASA LeRC Structural Dynamics Branch. The manual is divided into three major parts: an introduction, the preparation of input, and the procedure to execute FREPS. Part 1 includes a brief background on the necessity of FREPS, a description of the FREPS system, the steps needed to be taken before FREPS is executed, an example input file with instructions, presentation of the geometric conventions used, and the input/output files employed and produced by FREPS. Part 2 contains a detailed description of the command names needed to create the primary input file that is required to execute the FREPS code. Also, Part 2 has an example data file to aid the user in creating their own input files. Part 3 explains the procedures required to execute the FREPS code on the Cray Y-MP, a computer system available at the NASA LeRC.

  4. Validation and verification of the laser range safety tool (LRST)

    NASA Astrophysics Data System (ADS)

    Kennedy, Paul K.; Keppler, Kenneth S.; Thomas, Robert J.; Polhamus, Garrett D.; Smith, Peter A.; Trevino, Javier O.; Seaman, Daniel V.; Gallaway, Robert A.; Crockett, Gregg A.

    2003-06-01

    The U.S. Dept. of Defense (DOD) is currently developing and testing a number of High Energy Laser (HEL) weapons systems. DOD range safety officers now face the challenge of designing safe methods of testing HEL's on DOD ranges. In particular, safety officers need to ensure that diffuse and specular reflections from HEL system targets, as well as direct beam paths, are contained within DOD boundaries. If both the laser source and the target are moving, as they are for the Airborne Laser (ABL), a complex series of calculations is required and manual calculations are impractical. Over the past 5 years, the Optical Radiation Branch of the Air Force Research Laboratory (AFRL/HEDO), the ABL System Program Office, Logicon-RDA, and Northrup-Grumman, have worked together to develop a computer model called teh Laser Range Safety Tool (LRST), specifically designed for HEL reflection hazard analyses. The code, which is still under development, is currently tailored to support the ABL program. AFRL/HEDO has led an LRST Validation and Verification (V&V) effort since 1998, in order to determine if code predictions are accurate. This paper summarizes LRST V&V efforts to date including: i) comparison of code results with laboratory measurements of reflected laser energy and with reflection measurements made during actual HEL field tests, and ii) validation of LRST's hazard zone computations.

  5. Molecular Cloning and Functional Characterization of the Lycopene ε-Cyclase Gene via Virus-Induced Gene Silencing and Its Expression Pattern in Nicotiana tabacum

    PubMed Central

    Shi, Yanmei; Wang, Ran; Luo, Zhaopeng; Jin, Lifeng; Liu, Pingping; Chen, Qiansi; Li, Zefeng; Li, Feng; Wei, Chunyang; Wu, Mingzhu; Wei, Pan; Xie, He; Qu, Lingbo; Lin, Fucheng; Yang, Jun

    2014-01-01

    Lycopene ε-cyclase (ε-LCY) is a key enzyme that catalyzes the synthesis of α-branch carotenoids through the cyclization of lycopene. Two cDNA molecules encoding ε-LCY (designated Ntε-LCY1 and Ntε-LCY2) were cloned from Nicotiana tabacum. Ntε-LCY1 and Ntε-LCY2 are encoded by two distinct genes with different evolutionary origins, one originating from the tobacco progenitor, Nicotiana sylvestris, and the other originating from Nicotiana tomentosiformis. The two coding regions are 97% identical at the nucleotide level and 95% identical at the amino acid level. Transcripts of Ntε-LCY were detectable in both vegetative and reproductive organs, with a relatively higher level of expression in leaves than in other tissues. Subcellular localization experiments using an Ntε-LCY1-GFP fusion protein demonstrated that mature Ntε-LCY1 protein is localized within the chloroplast in Bright Yellow 2 suspension cells. Under low-temperature and low-irradiation stress, Ntε-LCY transcript levels substantially increased relative to control plants. Tobacco rattle virus (TRV)-mediated silencing of ε-LCY in Nicotiana benthamiana resulted in an increase of β-branch carotenoids and a reduction in the levels of α-branch carotenoids. Meanwhile, transcripts of related genes in the carotenoid biosynthetic pathway observably increased, with the exception of β-OHase in the TRV-ε-lcy line. Suppression of ε-LCY expression was also found to alleviate photoinhibition of Potosystem II in virus-induced gene silencing (VIGS) plants under low-temperature and low-irradiation stress. Our results provide insight into the regulatory role of ε-LCY in plant carotenoid biosynthesis and suggest a role for ε-LCY in positively modulating low temperature stress responses. PMID:25153631

  6. Molecular cloning and functional characterization of the lycopene ε-cyclase gene via virus-induced gene silencing and its expression pattern in Nicotiana tabacum.

    PubMed

    Shi, Yanmei; Wang, Ran; Luo, Zhaopeng; Jin, Lifeng; Liu, Pingping; Chen, Qiansi; Li, Zefeng; Li, Feng; Wei, Chunyang; Wu, Mingzhu; Wei, Pan; Xie, He; Qu, Lingbo; Lin, Fucheng; Yang, Jun

    2014-08-22

    Lycopene ε-cyclase (ε-LCY) is a key enzyme that catalyzes the synthesis of α-branch carotenoids through the cyclization of lycopene. Two cDNA molecules encoding ε-LCY (designated Ntε-LCY1 and Ntε-LCY2) were cloned from Nicotiana tabacum. Ntε-LCY1 and Ntε-LCY2 are encoded by two distinct genes with different evolutionary origins, one originating from the tobacco progenitor, Nicotiana sylvestris, and the other originating from Nicotiana tomentosiformis. The two coding regions are 97% identical at the nucleotide level and 95% identical at the amino acid level. Transcripts of Ntε-LCY were detectable in both vegetative and reproductive organs, with a relatively higher level of expression in leaves than in other tissues. Subcellular localization experiments using an Ntε-LCY1-GFP fusion protein demonstrated that mature Ntε-LCY1 protein is localized within the chloroplast in Bright Yellow 2 suspension cells. Under low-temperature and low-irradiation stress, Ntε-LCY transcript levels substantially increased relative to control plants. Tobacco rattle virus (TRV)-mediated silencing of ε-LCY in Nicotiana benthamiana resulted in an increase of β-branch carotenoids and a reduction in the levels of α-branch carotenoids. Meanwhile, transcripts of related genes in the carotenoid biosynthetic pathway observably increased, with the exception of β-OHase in the TRV-ε-lcy line. Suppression of ε-LCY expression was also found to alleviate photoinhibition of Potosystem II in virus-induced gene silencing (VIGS) plants under low-temperature and low-irradiation stress. Our results provide insight into the regulatory role of ε-LCY in plant carotenoid biosynthesis and suggest a role for ε-LCY in positively modulating low temperature stress responses.

  7. Two novel mutations in the BCKDK (branched-chain keto-acid dehydrogenase kinase) gene are responsible for a neurobehavioral deficit in two pediatric unrelated patients.

    PubMed

    García-Cazorla, Angels; Oyarzabal, Alfonso; Fort, Joana; Robles, Concepción; Castejón, Esperanza; Ruiz-Sala, Pedro; Bodoy, Susanna; Merinero, Begoña; Lopez-Sala, Anna; Dopazo, Joaquín; Nunes, Virginia; Ugarte, Magdalena; Artuch, Rafael; Palacín, Manuel; Rodríguez-Pombo, Pilar; Alcaide, Patricia; Navarrete, Rosa; Sanz, Paloma; Font-Llitjós, Mariona; Vilaseca, Ma Antonia; Ormaizabal, Aida; Pristoupilova, Anna; Agulló, Sergi Beltran

    2014-04-01

    Inactivating mutations in the BCKDK gene, which codes for the kinase responsible for the negative regulation of the branched-chain α-keto acid dehydrogenase complex (BCKD), have recently been associated with a form of autism in three families. In this work, two novel exonic BCKDK mutations, c.520C>G/p.R174G and c.1166T>C/p.L389P, were identified at the homozygous state in two unrelated children with persistently reduced body fluid levels of branched-chain amino acids (BCAAs), developmental delay, microcephaly, and neurobehavioral abnormalities. Functional analysis of the mutations confirmed the missense character of the c.1166T>C change and showed a splicing defect r.[520c>g;521_543del]/p.R174Gfs1*, for c.520C>G due to the presence of a new donor splice site. Mutation p.L389P showed total loss of kinase activity. Moreover, patient-derived fibroblasts showed undetectable (p.R174Gfs1*) or barely detectable (p.L389P) levels of BCKDK protein and its phosphorylated substrate (phospho-E1α), resulting in increased BCKD activity and the very rapid BCAA catabolism manifested by the patients' clinical phenotype. Based on these results, a protein-rich diet plus oral BCAA supplementation was implemented in the patient homozygous for p.R174Gfs1*. This treatment normalized plasma BCAA levels and improved growth, developmental and behavioral variables. Our results demonstrate that BCKDK mutations can result in neurobehavioral deficits in humans and support the rationale for dietary intervention. © 2014 WILEY PERIODICALS, INC.

  8. Constraints on the Distance Moduli, Helium, and Metal Abundances, and Ages of Globular Clusters from Their RR Lyrae and Non-variable Horizontal Branch Stars. II. Multiple Stellar Populations in 47 Tuc, M3, and M13

    NASA Astrophysics Data System (ADS)

    Denissenkov, Pavel A.; VandenBerg, Don A.; Kopacki, Grzegorz; Ferguson, Jason W.

    2017-11-01

    We present a new set of horizontal branch (HB) models computed with the MESA stellar evolution code. The models adopt α-enhanced Asplund et al. metal mixtures and include the gravitational settling of He. They are used in our HB population synthesis tool to generate theoretical distributions of HB stars in order to describe the multiple stellar populations in the globular clusters 47 Tuc, M3, and M13. The observed HB in 47 Tuc is reproduced very well by our simulations for [{Fe}/{{H}}]=-0.70 and [α /{Fe}]=+0.4 if the initial helium mass fraction varies by {{Δ }}{Y}0˜ 0.03, and approximately 21%, 37%, and 42% of the stars have {Y}0=0.257, 0.270, and 0.287, respectively. These simulations yield {(m-M)}V=13.27, implying an age near 13.0 Gyr. In the case of M3 and M13, our synthetic HBs for [{Fe}/{{H}}]=-1.55 and [α /{Fe}]=0.4 match the observed ones quite well if M3 has {{Δ }}{Y}0˜ 0.01 and {(m-M)}V=15.02, resulting in an age of 12.6 Gyr, whereas M13 has {{Δ }}{Y}0˜ 0.08 and {(m-M)}V=14.42, implying an age of 12.9 Gyr. Mass loss during giant branch evolution and {{Δ }}{Y}0 appear to be the primary second parameters for M3 and M13. New observations for seven of the nine known RR Lyrae in M13 are also reported. Surprisingly, periods predicted for the c-type variables tend to be too high (by up to ˜0.1 days).

  9. A Generalized Fluid System Simulation Program to Model Flow Distribution in Fluid Networks

    NASA Technical Reports Server (NTRS)

    Majumdar, Alok; Bailey, John W.; Schallhorn, Paul; Steadman, Todd

    1998-01-01

    This paper describes a general purpose computer program for analyzing steady state and transient flow in a complex network. The program is capable of modeling phase changes, compressibility, mixture thermodynamics and external body forces such as gravity and centrifugal. The program's preprocessor allows the user to interactively develop a fluid network simulation consisting of nodes and branches. Mass, energy and specie conservation equations are solved at the nodes; the momentum conservation equations are solved in the branches. The program contains subroutines for computing "real fluid" thermodynamic and thermophysical properties for 33 fluids. The fluids are: helium, methane, neon, nitrogen, carbon monoxide, oxygen, argon, carbon dioxide, fluorine, hydrogen, parahydrogen, water, kerosene (RP-1), isobutane, butane, deuterium, ethane, ethylene, hydrogen sulfide, krypton, propane, xenon, R-11, R-12, R-22, R-32, R-123, R-124, R-125, R-134A, R-152A, nitrogen trifluoride and ammonia. The program also provides the options of using any incompressible fluid with constant density and viscosity or ideal gas. Seventeen different resistance/source options are provided for modeling momentum sources or sinks in the branches. These options include: pipe flow, flow through a restriction, non-circular duct, pipe flow with entrance and/or exit losses, thin sharp orifice, thick orifice, square edge reduction, square edge expansion, rotating annular duct, rotating radial duct, labyrinth seal, parallel plates, common fittings and valves, pump characteristics, pump power, valve with a given loss coefficient, and a Joule-Thompson device. The system of equations describing the fluid network is solved by a hybrid numerical method that is a combination of the Newton-Raphson and successive substitution methods. This paper also illustrates the application and verification of the code by comparison with Hardy Cross method for steady state flow and analytical solution for unsteady flow.

  10. Improving the efficiency of configurational-bias Monte Carlo: A density-guided method for generating bending angle trials for linear and branched molecules

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

    Sepehri, Aliasghar; Loeffler, Troy D.; Chen, Bin, E-mail: binchen@lsu.edu

    2014-08-21

    A new method has been developed to generate bending angle trials to improve the acceptance rate and the speed of configurational-bias Monte Carlo. Whereas traditionally the trial geometries are generated from a uniform distribution, in this method we attempt to use the exact probability density function so that each geometry generated is likely to be accepted. In actual practice, due to the complexity of this probability density function, a numerical representation of this distribution function would be required. This numerical table can be generated a priori from the distribution function. This method has been tested on a united-atom model ofmore » alkanes including propane, 2-methylpropane, and 2,2-dimethylpropane, that are good representatives of both linear and branched molecules. It has been shown from these test cases that reasonable approximations can be made especially for the highly branched molecules to reduce drastically the dimensionality and correspondingly the amount of the tabulated data that is needed to be stored. Despite these approximations, the dependencies between the various geometrical variables can be still well considered, as evident from a nearly perfect acceptance rate achieved. For all cases, the bending angles were shown to be sampled correctly by this method with an acceptance rate of at least 96% for 2,2-dimethylpropane to more than 99% for propane. Since only one trial is required to be generated for each bending angle (instead of thousands of trials required by the conventional algorithm), this method can dramatically reduce the simulation time. The profiling results of our Monte Carlo simulation code show that trial generation, which used to be the most time consuming process, is no longer the time dominating component of the simulation.« less

  11. Residual Strength Analyses of Monolithic Structures

    NASA Technical Reports Server (NTRS)

    Forth, Scott (Technical Monitor); Ambur, Damodar R. (Technical Monitor); Seshadri, B. R.; Tiwari, S. N.

    2003-01-01

    Finite-element fracture simulation methodology predicts the residual strength of damaged aircraft structures. The methodology uses the critical crack-tip-opening-angle (CTOA) fracture criterion to characterize the fracture behavior of the material. The CTOA fracture criterion assumes that stable crack growth occurs when the crack-tip angle reaches a constant critical value. The use of the CTOA criterion requires an elastic- plastic, finite-element analysis. The critical CTOA value is determined by simulating fracture behavior in laboratory specimens, such as a compact specimen, to obtain the angle that best fits the observed test behavior. The critical CTOA value appears to be independent of loading, crack length, and in-plane dimensions. However, it is a function of material thickness and local crack-front constraint. Modeling the local constraint requires either a three-dimensional analysis or a two-dimensional analysis with an approximation to account for the constraint effects. In recent times as the aircraft industry is leaning towards monolithic structures with the intention of reducing part count and manufacturing cost, there has been a consistent effort at NASA Langley to extend critical CTOA based numerical methodology in the analysis of integrally-stiffened panels.In this regard, a series of fracture tests were conducted on both flat and curved aluminum alloy integrally-stiffened panels. These flat panels were subjected to uniaxial tension and during the test, applied load-crack extension, out-of-plane displacements and local deformations around the crack tip region were measured. Compact and middle-crack tension specimens were tested to determine the critical angle (wc) using three-dimensional code (ZIP3D) and the plane-strain core height (hJ using two-dimensional code (STAGS). These values were then used in the STAGS analysis to predict the fracture behavior of the integrally-stiffened panels. The analyses modeled stable tearing, buckling, and crack branching at the integral stiffener using different values of critical CTOA for different material thicknesses and orientation. Comparisons were made between measured and predicted load-crack extension, out-of-plane displacements and local deformations around the crack tip region. Simultaneously, three-dimensional capabilities to model crack branching and to monitor stable crack growth of multiple cracks in a large thick integrally-stiffened flat panels were implemented in three-dimensional finite element code (ZIP3D) and tested by analyzing the integrally-stiffened panels tested at Alcoa. The residual strength of the panels predicted from STAGS and ZP3D code compared very well with experimental data. In recent times, STAGS software has been updated with new features and now one can have combinations of solid and shell elements in the residual strength analysis of integrally-stiffened panels.

  12. Interordinal gene capture, the phylogenetic position of Steller's sea cow based on molecular and morphological data, and the macroevolutionary history of Sirenia.

    PubMed

    Springer, Mark S; Signore, Anthony V; Paijmans, Johanna L A; Vélez-Juarbe, Jorge; Domning, Daryl P; Bauer, Cameron E; He, Kai; Crerar, Lorelei; Campos, Paula F; Murphy, William J; Meredith, Robert W; Gatesy, John; Willerslev, Eske; MacPhee, Ross D E; Hofreiter, Michael; Campbell, Kevin L

    2015-10-01

    The recently extinct (ca. 1768) Steller's sea cow (Hydrodamalis gigas) was a large, edentulous North Pacific sirenian. The phylogenetic affinities of this taxon to other members of this clade, living and extinct, are uncertain based on previous morphological and molecular studies. We employed hybridization capture methods and second generation sequencing technology to obtain >30kb of exon sequences from 26 nuclear genes for both H. gigas and Dugong dugon. We also obtained complete coding sequences for the tooth-related enamelin (ENAM) gene. Hybridization probes designed using dugong and manatee sequences were both highly effective in retrieving sequences from H. gigas (mean=98.8% coverage), as were more divergent probes for regions of ENAM (99.0% coverage) that were designed exclusively from a proboscidean (African elephant) and a hyracoid (Cape hyrax). New sequences were combined with available sequences for representatives of all other afrotherian orders. We also expanded a previously published morphological matrix for living and fossil Sirenia by adding both new taxa and nine new postcranial characters. Maximum likelihood and parsimony analyses of the molecular data provide robust support for an association of H. gigas and D. dugon to the exclusion of living trichechids (manatees). Parsimony analyses of the morphological data also support the inclusion of H. gigas in Dugongidae with D. dugon and fossil dugongids. Timetree analyses based on calibration density approaches with hard- and soft-bounded constraints suggest that H. gigas and D. dugon diverged in the Oligocene and that crown sirenians last shared a common ancestor in the Eocene. The coding sequence for the ENAM gene in H. gigas does not contain frameshift mutations or stop codons, but there is a transversion mutation (AG to CG) in the acceptor splice site of intron 2. This disruption in the edentulous Steller's sea cow is consistent with previous studies that have documented inactivating mutations in tooth-specific loci of a variety of edentulous and enamelless vertebrates including birds, turtles, aardvarks, pangolins, xenarthrans, and baleen whales. Further, branch-site dN/dS analyses provide evidence for positive selection in ENAM on the stem dugongid branch where extensive tooth reduction occurred, followed by neutral evolution on the Hydrodamalis branch. Finally, we present a synthetic evolutionary tree for living and fossil sirenians showing several key innovations in the history of this clade including character state changes that parallel those that occurred in the evolutionary history of cetaceans. Copyright © 2015 Elsevier Inc. All rights reserved.

  13. Transfer RNAs with novel cloverleaf structures

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

    Mukai, Takahito; Vargas-Rodriguez, Oscar; Englert, Markus

    We report the identification of novel tRNA species with 12-base pair amino-acid acceptor branches composed of longer acceptor stem and shorter Tstem. While canonical tRNAs have a 7/5 configuration of the branch, the novel tRNAs have either 8/4 or 9/3 structure. They were found during the search for selenocysteine tRNAs in terabytes of genome, metagenome and metatranscriptome sequences. Certain bacteria and their phages employ the 8/4 structure for serine and histidine tRNAs, while minor cysteine and selenocysteine tRNA species may have a modified 8/4 structure with one bulge nucleotide. In Acidobacteria, tRNAs with 8/4 and 9/3 structures may function asmore » missense and nonsense suppressor tRNAs and/or regulatory noncod ing RNAs. In δ-proteobacteria, an additional cysteine tRNA with an 8/4 structure mimics selenocysteine tRNA and may function as opal suppressor. We examined the potential translation function of suppressor tRNA species inEscherichia coli; tRNAs with 8/4 or 9/3 structures efficiently inserted serine, alanine and cysteine in response to stop and sense codons, depending on the identity element and anticodon sequence of the tRNA. These findings expand our view of how tRNA, and possibly the genetic code, is diversified in nature.« less

  14. Transfer RNAs with novel cloverleaf structures

    DOE PAGES

    Mukai, Takahito; Vargas-Rodriguez, Oscar; Englert, Markus; ...

    2016-10-05

    We report the identification of novel tRNA species with 12-base pair amino-acid acceptor branches composed of longer acceptor stem and shorter Tstem. While canonical tRNAs have a 7/5 configuration of the branch, the novel tRNAs have either 8/4 or 9/3 structure. They were found during the search for selenocysteine tRNAs in terabytes of genome, metagenome and metatranscriptome sequences. Certain bacteria and their phages employ the 8/4 structure for serine and histidine tRNAs, while minor cysteine and selenocysteine tRNA species may have a modified 8/4 structure with one bulge nucleotide. In Acidobacteria, tRNAs with 8/4 and 9/3 structures may function asmore » missense and nonsense suppressor tRNAs and/or regulatory noncod ing RNAs. In δ-proteobacteria, an additional cysteine tRNA with an 8/4 structure mimics selenocysteine tRNA and may function as opal suppressor. We examined the potential translation function of suppressor tRNA species inEscherichia coli; tRNAs with 8/4 or 9/3 structures efficiently inserted serine, alanine and cysteine in response to stop and sense codons, depending on the identity element and anticodon sequence of the tRNA. These findings expand our view of how tRNA, and possibly the genetic code, is diversified in nature.« less

  15. E1 and M1 strength functions at low energy

    NASA Astrophysics Data System (ADS)

    Schwengner, Ronald; Massarczyk, Ralph; Bemmerer, Daniel; Beyer, Roland; Junghans, Arnd R.; Kögler, Toni; Rusev, Gencho; Tonchev, Anton P.; Tornow, Werner; Wagner, Andreas

    2017-09-01

    We report photon-scattering experiments using bremsstrahlung at the γELBE facility of Helmholtz-Zentrum Dresden-Rossendorf and using quasi-monoenergetic, polarized γ beams at the HIγS facility of the Triangle Universities Nuclear Laboratory in Durham. To deduce the photoabsorption cross sections at high excitation energy and high level density, unresolved strength in the quasicontinuum of nuclear states has been taken into account. In the analysis of the spectra measured by using bremsstrahlung at γELBE, we perform simulations of statistical γ-ray cascades using the code γDEX to estimate intensities of inelastic transitions to low-lying excited states. Simulated average branching ratios are compared with model-independent branching ratios obtained from spectra measured by using monoenergetic γ beams at HIγS. E1 strength in the energy region of the pygmy dipole resonance is discussed in nuclei around mass 90 and in xenon isotopes. M1 strength in the region of the spin-flip resonance is also considered for xenon isotopes. The dipole strength function of 74Ge deduced from γELBE experiments is compared with the one obtained from experiments at the Oslo Cyclotron Laboratory. The low-energy upbend seen in the Oslo data is interpreted as M1 strength on the basis of shell-model calculations.

  16. Cloning and characterization of farnesyl pyrophosphate synthase from the highly branched isoprenoid producing diatom Rhizosolenia setigera.

    PubMed

    Ferriols, Victor Marco Emmanuel N; Yaginuma, Ryoko; Adachi, Masao; Takada, Kentaro; Matsunaga, Shigeki; Okada, Shigeru

    2015-05-21

    The diatom Rhizosolenia setigera Brightwell produces highly branched isoprenoid (HBI) hydrocarbons that are ubiquitously present in marine environments. The hydrocarbon composition of R. setigera varies between C25 and C30 HBIs depending on the life cycle stage with regard to auxosporulation. To better understand how these hydrocarbons are biosynthesized, we characterized the farnesyl pyrophosphate (FPP) synthase (FPPS) enzyme of R. setigera. An isolated 1465-bp cDNA clone contained an open reading frame spanning 1299-bp encoding a protein with 432 amino acid residues. Expression of the RsFPPS cDNA coding region in Escherichia coli produced a protein that exhibited FPPS activity in vitro. A reduction in HBI content from diatoms treated with an FPPS inhibitor, risedronate, suggested that RsFPPS supplies precursors for HBI biosynthesis. Product analysis by gas chromatography-mass spectrometry also revealed that RsFPPS produced small amounts of the cis-isomers of geranyl pyrophosphate and FPP, candidate precursors for the cis-isomers of HBIs previously characterized. Furthermore, RsFPPS gene expression at various life stages of R. setigera in relation to auxosporulation were also analyzed. Herein, we present data on the possible role of RsFPPS in HBI biosynthesis, and it is to our knowledge the first instance that an FPPS was cloned and characterized from a diatom.

  17. Posttranscriptional regulation of albumin gene expression by branched-chain amino acids in rats with acute liver injury.

    PubMed

    Kuwahata, Masashi; Kuramoto, Yasuko; Tomoe, Yuka; Sugata, Emi; Segawa, Hiroko; Ito, Mikiko; Oka, Tatsuzo; Miyamoto, Ken-Ichi

    2004-12-24

    We previously demonstrated that the integration of albumin mRNA into functional polysomes was regulated by the supply of branched-chain amino acids (BCAA) in the liver of galactosamine-treated rats. To study the mechanism of this regulation, we investigated interaction between rat liver proteins and albumin transcripts. When albumin transcript was incubated with ribosome salt wash (RSW) extracts prepared from liver, a specific RNA-protein complex (p65) formed. Competition experiments showed that a pyrimidine-rich sequence in the coding region of albumin mRNA was required for the formation of p65. The level of p65 was increased in the RSW extracts prepared from liver of galactosamine-treated rats infused with a standard amino acid formula, compared with a BCAA-enriched amino acid formula. The protein in p65 appears to be polypyrimidine tract-binding protein (PTB), because the formation of p65 was reduced in the RSW extracts pre-incubated with anti-PTB antibody. In cell-free translation analysis, immunodepletion of PTB from rabbit reticulocyte lysate caused an increase in albumin translation. These results suggest that binding of PTB to albumin mRNA suppresses its translation. A supply of BCAA may interfere with this binding and improve the translation efficiency of albumin mRNA in injured liver.

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

    Frilet, M.; Newman, J.

    Foreign companies engaging in business in Cameroon, Congo, Gabon, and Ivory Coast are subject to a broad range of regulations. This article deals only with those aspects of the regulations that are most important to petroleum contractors intending to engage in business in these countries. The regulator scheme actually applicable in a given case will depend on the legal structure through which a corporation operates. An American corporation may envisage engaging in business on a long-term basis through a local subsidiary or branch. On the other hand, it may wish only to perform temporary activities pursuant to one or moremore » fixed-duration contracts with petroleum companies operating in one of countries. Each of these situations is dealt with. Common features of each area of regulation were described and the differences in regulations were presented. These topics were included: exchange control regulation, corporate forms of business association, authorization to engage in business, requirement of government or local participation in capital, investment code incentives, labor law requirements, taxation of corporations, taxation of profits, taxation of income from movable capital, taxation of amounts paid abroad as technical assistance fees, royalties and similar compensation, turnover taxes, payroll taxes, taxation of business performed without forming a local company or branch, taxation of employees and Social Security contributions. (DP)« less

  19. Do Community Characteristics Relate to Young Adult College Students' Credit Card Debt? The Hypothesized Role of Collective Institutional Efficacy.

    PubMed

    Friedline, Terri; West, Stacia; Rosell, Nehemiah; Serido, Joyce; Shim, Soyeon

    2017-03-01

    This study examines the extent of emergent, outstanding credit card debt among young adult college students and investigates whether any associations existed between this credit card debt and the characteristics of the communities in which these students grew up or lived. Using data (N = 748) from a longitudinal survey and merging community characteristics measured at the zip code level, we confirmed that a community's unemployment rate, average total debt, average credit score, and number of bank branch offices were associated with a young adult college student's acquisition and accumulation of credit card debt. For example, a community's higher unemployment rate and lower number of bank branches were associated with a young adult college student's greater accumulated debt. Community characteristics had the strongest associations with credit card debt, especially after controlling for individual characteristics (i.e., a young adult college student's race and financial independence) and familial characteristics (i.e., their parents' income and parents' discussions of financial matters while growing up at home). The findings may help to understand the unique roles that communities play in shaping children and young adults' financial capability, and how communities can be better capacitated to support the financial goals of their residents. © Society for Community Research and Action 2017.

  20. Double-bromo and extraterminal (BET) domain proteins regulate dendrite morphology and mechanosensory function.

    PubMed

    Bagley, Joshua A; Yan, Zhiqiang; Zhang, Wei; Wildonger, Jill; Jan, Lily Yeh; Jan, Yuh Nung

    2014-09-01

    A complex array of genetic factors regulates neuronal dendrite morphology. Epigenetic regulation of gene expression represents a plausible mechanism to control pathways responsible for specific dendritic arbor shapes. By studying the Drosophila dendritic arborization (da) neurons, we discovered a role of the double-bromodomain and extraterminal (BET) family proteins in regulating dendrite arbor complexity. A loss-of-function mutation in the single Drosophila BET protein encoded by female sterile 1 homeotic [fs(1)h] causes loss of fine, terminal dendritic branches. Moreover, fs(1)h is necessary for the induction of branching caused by a previously identified transcription factor, Cut (Ct), which regulates subtype-specific dendrite morphology. Finally, disrupting fs(1)h function impairs the mechanosensory response of class III da sensory neurons without compromising the expression of the ion channel NompC, which mediates the mechanosensitive response. Thus, our results identify a novel role for BET family proteins in regulating dendrite morphology and a possible separation of developmental pathways specifying neural cell morphology and ion channel expression. Since the BET proteins are known to bind acetylated histone tails, these results also suggest a role of epigenetic histone modifications and the "histone code," in regulating dendrite morphology. © 2014 Bagley et al.; Published by Cold Spring Harbor Laboratory Press.

  1. Lengsin is a survivor of an ancient family of class I glutamine synthetases in eukaryotes that has undergone evolutionary re-engineering for a role in the vertebrate eye lens.

    PubMed Central

    Wyatt, Keith; White, Helen E.; Wang, Luchun; Bateman, Orval A.; Slingsby, Christine; Orlova, Elena V.; Wistow, Graeme

    2006-01-01

    Summary Lengsin is a member of the glutamine synthetase (GS) superfamily expressed in the vertebrate eye lens. While the GS homology domains of lengsin are well conserved in all species examined, the N-terminal domain shows evidence of dynamic evolutionary changes. Compared with zebrafish and chicken, most mammals have an additional exon in the lengsin gene corresponding to part of the N-terminal domain, however in human this is a non-functional pseudoexon. Lengsin belongs to the hitherto purely prokaryotic GS I branch of the GS superfamily. Cryo-EM and modeling studies of lengsin show a dodecamer structure with important similarities and differences with GS I structures. There are sequence changes in GS catalytic motifs of lengsin and in multiple enzyme assays recombinant mouse lengsin showed no activity. Like the taxon-specific crystallins, lengsin may be the result of the recruitment of an ancient enzyme to a different, non-catalytic role in the vertebrate lens. Genomics data show that protein-coding genes related to lengsin are present in the Sea urchin, suggesting that this branch of the GS I family has an ancient role in metazoans. PMID:17161372

  2. Identification of a novel homozygous mutation (S144I) in a Malay patient with maple syrup urine disease.

    PubMed

    Ali, Ernie Zuraida; Yunus, Zabedah Md; Desa, Norsiah Md; Hock, Ngu Lock

    2013-01-01

    Maple syrup urine disease (MSUD) is a rare autosomal recessive metabolic disorder of branched-chain amino acid metabolism caused by the defective function of branched-chain α-ketoacid dehydrogenase complex (BCKDH). It is characterised by increased plasma leucine, isoleucine, and valine levels, and mutations can be detected in any one of the BCKDHA, BCKDHB, and DBT genes. In this study, we describe the molecular basis of a novel mutation found in one MSUD Malay patient from consanguineous parents. A homozygous mutation has been detected in this patient whose both parents carried a heterozygous mutation at DNA coding region c.431G>T in exon 4, which resulted in a substitution of serine to isoleucine at codon 144 (p.S144I). In silico analysis predicted S144I to be potentially damaging. The mutation was located on the alpha helical region of the BCKDHA protein, and it is predicted to affect the stability of protein due to the loss of various polar interactions between local secondary structures. Homology analysis revealed that this mutation occurred in a highly conserved region (100%). This result indicates that S144I mutation is likely pathogenic and may contribute to the classic form of MSUD in this patient.

  3. Metabolic gene clusters encoding the enzymes of two branches of the 3-oxoadipate pathway in the pathogenic yeast Candida albicans.

    PubMed

    Gérecová, Gabriela; Neboháčová, Martina; Zeman, Igor; Pryszcz, Leszek P; Tomáška, Ľubomír; Gabaldón, Toni; Nosek, Jozef

    2015-05-01

    The pathogenic yeast Candida albicans utilizes hydroxyderivatives of benzene via the catechol and hydroxyhydroquinone branches of the 3-oxoadipate pathway. The genetic basis and evolutionary origin of this catabolic pathway in yeasts are unknown. In this study, we identified C. albicans genes encoding the enzymes involved in the degradation of hydroxybenzenes. We found that the genes coding for core components of the 3-oxoadipate pathway are arranged into two metabolic gene clusters. Our results demonstrate that C. albicans cells cultivated in media containing hydroxybenzene substrates highly induce the transcription of these genes as well as the corresponding enzymatic activities. We also found that C. albicans cells assimilating hydroxybenzenes cope with the oxidative stress by upregulation of cellular antioxidant systems such as alternative oxidase and catalase. Moreover, we investigated the evolution of the enzymes encoded by these clusters and found that most of them share a particularly sparse phylogenetic distribution among Saccharomycotina, which is likely to have been caused by extensive gene loss. We exploited this fact to find co-evolving proteins that are suitable candidates for the missing enzymes of the pathway. © FEMS 2015. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  4. Dynamic and Widespread lncRNA Expression in a Sponge and the Origin of Animal Complexity

    PubMed Central

    Gaiti, Federico; Fernandez-Valverde, Selene L.; Nakanishi, Nagayasu; Calcino, Andrew D.; Yanai, Itai; Tanurdzic, Milos; Degnan, Bernard M.

    2015-01-01

    Long noncoding RNAs (lncRNAs) are important developmental regulators in bilaterian animals. A correlation has been claimed between the lncRNA repertoire expansion and morphological complexity in vertebrate evolution. However, this claim has not been tested by examining morphologically simple animals. Here, we undertake a systematic investigation of lncRNAs in the demosponge Amphimedon queenslandica, a morphologically simple, early-branching metazoan. We combine RNA-Seq data across multiple developmental stages of Amphimedon with a filtering pipeline to conservatively predict 2,935 lncRNAs. These include intronic overlapping lncRNAs, exonic antisense overlapping lncRNAs, long intergenic nonprotein coding RNAs, and precursors for small RNAs. Sponge lncRNAs are remarkably similar to their bilaterian counterparts in being relatively short with few exons and having low primary sequence conservation relative to protein-coding genes. As in bilaterians, a majority of sponge lncRNAs exhibit typical hallmarks of regulatory molecules, including high temporal specificity and dynamic developmental expression. Specific lncRNA expression profiles correlate tightly with conserved protein-coding genes likely involved in a range of developmental and physiological processes, such as the Wnt signaling pathway. Although the majority of Amphimedon lncRNAs appears to be taxonomically restricted with no identifiable orthologs, we find a few cases of conservation between demosponges in lncRNAs that are antisense to coding sequences. Based on the high similarity in the structure, organization, and dynamic expression of sponge lncRNAs to their bilaterian counterparts, we propose that these noncoding RNAs are an ancient feature of the metazoan genome. These results are consistent with lncRNAs regulating the development of animals, regardless of their level of morphological complexity. PMID:25976353

  5. Branches of the Facial Artery.

    PubMed

    Hwang, Kun; Lee, Geun In; Park, Hye Jin

    2015-06-01

    The aim of this study is to review the name of the branches, to review the classification of the branching pattern, and to clarify a presence percentage of each branch of the facial artery, systematically. In a PubMed search, the search terms "facial," AND "artery," AND "classification OR variant OR pattern" were used. The IBM SPSS Statistics 20 system was used for statistical analysis. Among the 500 titles, 18 articles were selected and reviewed systematically. Most of the articles focused on "classification" according to the "terminal branch." Several authors classified the facial artery according to their terminal branches. Most of them, however, did not describe the definition of "terminal branch." There were confusions within the classifications. When the inferior labial artery was absent, 3 different types were used. The "alar branch" or "nasal branch" was used instead of the "lateral nasal branch." The angular branch was used to refer to several different branches. The presence as a percentage of each branch according to the branches in Gray's Anatomy (premasseteric, inferior labial, superior labial, lateral nasal, and angular) varied. No branch was used with 100% consistency. The superior labial branch was most frequently cited (95.7%, 382 arteries in 399 hemifaces). The angular branch (53.9%, 219 arteries in 406 hemifaces) and the premasseteric branch were least frequently cited (53.8%, 43 arteries in 80 hemifaces). There were significant differences among each of the 5 branches (P < 0.05) except between the angular branch and the premasseteric branch and between the superior labial branch and the inferior labial branch. The authors believe identifying the presence percentage of each branch will be helpful for surgical procedures.

  6. Geometrical layout and optics modelling of the surface science beamline station at the SESAME synchrotron radiation facility.

    PubMed

    Salah, Wa'el; Sanchez del Rio, Manuel

    2011-05-01

    The layout and the optical performance of the SGM branch of the D09 bending-magnet beamline, under construction at SESAME, are presented. The beamline is based on the Dragon-type design and delivers photons over the spectral range 15-250 eV. One fixed entrance slit and a movable exit slit are used. The performance of the beamline has been characterized by calculating the mirror reflectivities and the grating efficiencies. The flux and resolution were calculated by ray-tracing using SHADOW. The grating diffraction efficiencies were calculated using the GRADIF code. The results and the overall shapes of the predicted curves are in reasonable agreement with those obtained using an analytical formula.

  7. Genome sequence analysis of five Canadian isolates of strawberry mottle virus reveals extensive intra-species diversity and a longer RNA2 with increased coding capacity compared to a previously characterized European isolate.

    PubMed

    Bhagwat, Basdeo; Dickison, Virginia; Ding, Xinlun; Walker, Melanie; Bernardy, Michael; Bouthillier, Michel; Creelman, Alexa; DeYoung, Robyn; Li, Yinzi; Nie, Xianzhou; Wang, Aiming; Xiang, Yu; Sanfaçon, Hélène

    2016-06-01

    In this study, we report the genome sequence of five isolates of strawberry mottle virus (family Secoviridae, order Picornavirales) from strawberry field samples with decline symptoms collected in Eastern Canada. The Canadian isolates differed from the previously characterized European isolate 1134 in that they had a longer RNA2, resulting in a 239-amino-acid extension of the C-terminal region of the polyprotein. Sequence analysis suggests that reassortment and recombination occurred among the isolates. Phylogenetic analysis revealed that the Canadian isolates are diverse, grouping in two separate branches along with isolates from Europe and the Americas.

  8. Branch classification: A new mechanism for improving branch predictor performance

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

    Chang, P.Y.; Hao, E.; Patt, Y.

    There is wide agreement that one of the most significant impediments to the performance of current and future pipelined superscalar processors is the presence of conditional branches in the instruction stream. Speculative execution is one solution to the branch problem, but speculative work is discarded if a branch is mispredicted. For it to be effective, speculative work is discarded if a branch is mispredicted. For it to be effective, speculative execution requires a very accurate branch predictor; 95% accuracy is not good enough. This paper proposes branch classification, a methodology for building more accurate branch predictors. Branch classification allows anmore » individual branch instruction to be associated with the branch predictor best suited to predict its direction. Using this approach, a hybrid branch predictor can be constructed such that each component branch predictor predicts those branches for which it is best suited. To demonstrate the usefulness of branch classification, an example classification scheme is given and a new hybrid predictor is built based on this scheme which achieves a higher prediction accuracy than any branch predictor previously reported in the literature.« less

  9. Concentrative nitrogen allocation to sun-lit branches and the effects on whole-plant growth under heterogeneous light environments.

    PubMed

    Sugiura, D; Tateno, M

    2013-08-01

    We investigated the nitrogen and carbohydrate allocation patterns of trees under heterogeneous light environments using saplings of the devil maple tree (Acer diabolicum) with Y-shaped branches. Different branch groups were created: all branches of a sapling exposed to full light (L-branches), all branches exposed to full shade (S-branches), and half of the branches of a sapling exposed to light (HL-branches) and the other half exposed to shade (HS-branches). Throughout the growth period, nitrogen was preferentially allocated to HL-branches, whereas nitrogen allocation to HS-branches was suppressed compared to L- and S-branches. HL-branches with the highest leaf nitrogen content (N(area)) also had the highest rates of growth, and HS-branches with the lowest N(area) had the lowest observed growth rates. In addition, net nitrogen assimilation, estimated using a photosynthesis model, was strongly correlated with branch growth and whole-plant growth. In contrast, patterns of photosynthate allocation to branches and roots were not affected by the light conditions of the other branch. These observations suggest that tree canopies develop as a result of resource allocation patterns, where the growth of sun-lit branches is favoured over shaded branches, which leads to enhanced whole-plant growth in heterogeneous light environments. Our results indicate that whole-plant growth is enhanced by the resource allocation patterns created for saplings in heterogeneous light environments.

  10. Towards seamless workflows in agile data science

    NASA Astrophysics Data System (ADS)

    Klump, J. F.; Robertson, J.

    2017-12-01

    Agile workflows are a response to projects with requirements that may change over time. They prioritise rapid and flexible responses to change, preferring to adapt to changes in requirements rather than predict them before a project starts. This suits the needs of research very well because research is inherently agile in its methodology. The adoption of agile methods has made collaborative data analysis much easier in a research environment fragmented across institutional data stores, HPC, personal and lab computers and more recently cloud environments. Agile workflows use tools that share a common worldview: in an agile environment, there may be more that one valid version of data, code or environment in play at any given time. All of these versions need references and identifiers. For example, a team of developers following the git-flow conventions (github.com/nvie/gitflow) may have several active branches, one for each strand of development. These workflows allow rapid and parallel iteration while maintaining identifiers pointing to individual snapshots of data and code and allowing rapid switching between strands. In contrast, the current focus of versioning in research data management is geared towards managing data for reproducibility and long-term preservation of the record of science. While both are important goals in the persistent curation domain of the institutional research data infrastructure, current tools emphasise planning over adaptation and can introduce unwanted rigidity by insisting on a single valid version or point of truth. In the collaborative curation domain of a research project, things are more fluid. However, there is no equivalent to the "versioning iso-surface" of the git protocol for the management and versioning of research data. At CSIRO we are developing concepts and tools for the agile management of software code and research data for virtual research environments, based on our experiences of actual data analytics projects in the geosciences. We use code management that allows researchers to interact with the code through tools like Jupyter Notebooks while data are held in an object store. Our aim is an architecture allowing seamless integration of code development, data management, and data processing in virtual research environments.

  11. Turing mechanism underlying a branching model for lung morphogenesis.

    PubMed

    Xu, Hui; Sun, Mingzhu; Zhao, Xin

    2017-01-01

    The mammalian lung develops through branching morphogenesis. Two primary forms of branching, which occur in order, in the lung have been identified: tip bifurcation and side branching. However, the mechanisms of lung branching morphogenesis remain to be explored. In our previous study, a biological mechanism was presented for lung branching pattern formation through a branching model. Here, we provide a mathematical mechanism underlying the branching patterns. By decoupling the branching model, we demonstrated the existence of Turing instability. We performed Turing instability analysis to reveal the mathematical mechanism of the branching patterns. Our simulation results show that the Turing patterns underlying the branching patterns are spot patterns that exhibit high local morphogen concentration. The high local morphogen concentration induces the growth of branching. Furthermore, we found that the sparse spot patterns underlie the tip bifurcation patterns, while the dense spot patterns underlies the side branching patterns. The dispersion relation analysis shows that the Turing wavelength affects the branching structure. As the wavelength decreases, the spot patterns change from sparse to dense, the rate of tip bifurcation decreases and side branching eventually occurs instead. In the process of transformation, there may exists hybrid branching that mixes tip bifurcation and side branching. Since experimental studies have reported that branching mode switching from side branching to tip bifurcation in the lung is under genetic control, our simulation results suggest that genes control the switch of the branching mode by regulating the Turing wavelength. Our results provide a novel insight into and understanding of the formation of branching patterns in the lung and other biological systems.

  12. Use of Generalized Fluid System Simulation Program (GFSSP) for Teaching and Performing Senior Design Projects at the Educational Institutions

    NASA Technical Reports Server (NTRS)

    Majumdar, A. K.; Hedayat, A.

    2015-01-01

    This paper describes the experience of the authors in using the Generalized Fluid System Simulation Program (GFSSP) in teaching Design of Thermal Systems class at University of Alabama in Huntsville. GFSSP is a finite volume based thermo-fluid system network analysis code, developed at NASA/Marshall Space Flight Center, and is extensively used in NASA, Department of Defense, and aerospace industries for propulsion system design, analysis, and performance evaluation. The educational version of GFSSP is freely available to all US higher education institutions. The main purpose of the paper is to illustrate the utilization of this user-friendly code for the thermal systems design and fluid engineering courses and to encourage the instructors to utilize the code for the class assignments as well as senior design projects. The need for a generalized computer program for thermofluid analysis in a flow network has been felt for a long time in aerospace industries. Designers of thermofluid systems often need to know pressures, temperatures, flow rates, concentrations, and heat transfer rates at different parts of a flow circuit for steady state or transient conditions. Such applications occur in propulsion systems for tank pressurization, internal flow analysis of rocket engine turbopumps, chilldown of cryogenic tanks and transfer lines, and many other applications of gas-liquid systems involving fluid transients and conjugate heat and mass transfer. Computer resource requirements to perform time-dependent, three-dimensional Navier-Stokes computational fluid dynamic (CFD) analysis of such systems are prohibitive and therefore are not practical. Available commercial codes are generally suitable for steady state, single-phase incompressible flow. Because of the proprietary nature of such codes, it is not possible to extend their capability to satisfy the above-mentioned needs. Therefore, the Generalized Fluid System Simulation Program (GFSSP1) has been developed at NASA Marshall Space Flight Center (MSFC) as a general fluid flow system solver capable of handling phase changes, compressibility, mixture thermodynamics and transient operations. It also includes the capability to model external body forces such as gravity and centrifugal effects in a complex flow network. The objectives of GFSSP development are: a) to develop a robust and efficient numerical algorithm to solve a system of equations describing a flow network containing phase changes, mixing, and rotation; and b) to implement the algorithm in a structured, easy-to-use computer program. The analysis of thermofluid dynamics in a complex network requires resolution of the system into fluid nodes and branches, and solid nodes and conductors as shown in Figure 1. Figure 1 shows a schematic and GFSSP flow circuit of a counter-flow heat exchanger. Hot nitrogen gas is flowing through a pipe, colder nitrogen is flowing counter to the hot stream in the annulus pipe and heat transfer occurs through metal tubes. The problem considered is to calculate flowrates and temperature distributions in both streams. GFSSP has a unique data structure, as shown in Figure 2, that allows constructing all possible arrangements of a flow network with no limit on the number of elements. The elements of a flow network are boundary nodes where pressure and temperature are specified, internal nodes where pressure and temperature are calculated, and branches where flowrates are calculated. For conjugate heat transfer problems, there are three additional elements: solid node, ambient node, and conductor. The solid and fluid nodes are connected with solid-fluid conductors. GFSSP solves the conservation equations of mass and energy, and equation of state in internal nodes to calculate pressure, temperature and resident mass. The momentum conservation equation is solved in branches to calculate flowrate. It also solves for energy conservation equations to calculate temperatures of solid nodes. The equations are coupled and nonlinear; therefore, they are solved by an iterative numerical scheme. GFSSP employs a unique numerical scheme known as simultaneous adjustment with successive substitution (SASS), which is a combination of Newton-Raphson and successive substitution methods. The mass and momentum conservation equations and the equation of state are solved by the Newton-Raphson method while the conservation of energy and species are solved by the successive substitution method. GFSSP is linked with two thermodynamic property programs, GASP2 and WASP3 and GASPAK4, that provide thermodynamic and thermophysical properties of selected fluids. Both programs cover a range of pressure and temperature that allows fluid properties to be evaluated for liquid, liquid-vapor (saturation), and vapor region. GASP and WASP provide properties of 12 fluids. GASPAK includes a library of 36 fluids. GFSSP has three major parts. The first part is the graphical user interface (GUI), visual thermofluid analyzer of systems and components (VTASC). VTASC allows users to create a flow circuit by a 'point and click' paradigm. It creates the GFSSP input file after the completion of the model building process. GFSSP's GUI provides the users a platform to build and run their models. It also allows post-processing of results. The network flow circuit is first built using three basic elements: boundary node, internal node, and branch.

  13. EO/IR scene generation open source initiative for real-time hardware-in-the-loop and all-digital simulation

    NASA Astrophysics Data System (ADS)

    Morris, Joseph W.; Lowry, Mac; Boren, Brett; Towers, James B.; Trimble, Darian E.; Bunfield, Dennis H.

    2011-06-01

    The US Army Aviation and Missile Research, Development and Engineering Center (AMRDEC) and the Redstone Test Center (RTC) has formed the Scene Generation Development Center (SGDC) to support the Department of Defense (DoD) open source EO/IR Scene Generation initiative for real-time hardware-in-the-loop and all-digital simulation. Various branches of the DoD have invested significant resources in the development of advanced scene and target signature generation codes. The SGDC goal is to maintain unlimited government rights and controlled access to government open source scene generation and signature codes. In addition, the SGDC provides development support to a multi-service community of test and evaluation (T&E) users, developers, and integrators in a collaborative environment. The SGDC has leveraged the DoD Defense Information Systems Agency (DISA) ProjectForge (https://Project.Forge.mil) which provides a collaborative development and distribution environment for the DoD community. The SGDC will develop and maintain several codes for tactical and strategic simulation, such as the Joint Signature Image Generator (JSIG), the Multi-spectral Advanced Volumetric Real-time Imaging Compositor (MAVRIC), and Office of the Secretary of Defense (OSD) Test and Evaluation Science and Technology (T&E/S&T) thermal modeling and atmospherics packages, such as EOView, CHARM, and STAR. Other utility packages included are the ContinuumCore for real-time messaging and data management and IGStudio for run-time visualization and scenario generation.

  14. Branch length estimation and divergence dating: estimates of error in Bayesian and maximum likelihood frameworks.

    PubMed

    Schwartz, Rachel S; Mueller, Rachel L

    2010-01-11

    Estimates of divergence dates between species improve our understanding of processes ranging from nucleotide substitution to speciation. Such estimates are frequently based on molecular genetic differences between species; therefore, they rely on accurate estimates of the number of such differences (i.e. substitutions per site, measured as branch length on phylogenies). We used simulations to determine the effects of dataset size, branch length heterogeneity, branch depth, and analytical framework on branch length estimation across a range of branch lengths. We then reanalyzed an empirical dataset for plethodontid salamanders to determine how inaccurate branch length estimation can affect estimates of divergence dates. The accuracy of branch length estimation varied with branch length, dataset size (both number of taxa and sites), branch length heterogeneity, branch depth, dataset complexity, and analytical framework. For simple phylogenies analyzed in a Bayesian framework, branches were increasingly underestimated as branch length increased; in a maximum likelihood framework, longer branch lengths were somewhat overestimated. Longer datasets improved estimates in both frameworks; however, when the number of taxa was increased, estimation accuracy for deeper branches was less than for tip branches. Increasing the complexity of the dataset produced more misestimated branches in a Bayesian framework; however, in an ML framework, more branches were estimated more accurately. Using ML branch length estimates to re-estimate plethodontid salamander divergence dates generally resulted in an increase in the estimated age of older nodes and a decrease in the estimated age of younger nodes. Branch lengths are misestimated in both statistical frameworks for simulations of simple datasets. However, for complex datasets, length estimates are quite accurate in ML (even for short datasets), whereas few branches are estimated accurately in a Bayesian framework. Our reanalysis of empirical data demonstrates the magnitude of effects of Bayesian branch length misestimation on divergence date estimates. Because the length of branches for empirical datasets can be estimated most reliably in an ML framework when branches are <1 substitution/site and datasets are > or =1 kb, we suggest that divergence date estimates using datasets, branch lengths, and/or analytical techniques that fall outside of these parameters should be interpreted with caution.

  15. The complete mitochondrial genome of Strongylus equinus (Chromadorea: Strongylidae): Comparison with other closely related species and phylogenetic analyses.

    PubMed

    Xu, Wen-Wen; Qiu, Jian-Hua; Liu, Guo-Hua; Zhang, Yan; Liu, Ze-Xuan; Duan, Hong; Yue, Dong-Mei; Chang, Qiao-Cheng; Wang, Chun-Ren; Zhao, Xing-Cun

    2015-12-01

    The roundworms of genus Strongylus are the common parasitic nematodes in the large intestine of equine, causing significant economic losses to the livestock industries. In spite of its importance, the genetic data and epidemiology of this parasite are not entirely understood. In the present study, the complete S. equinus mitochondrial (mt) genome was determined. The length of S. equinus mt genome DNA sequence is 14,545 bp, containing 36 genes, of which 12 code for protein, 22 for transfer RNA, and two for ribosomal RNA, but lacks atp8 gene. All 36 genes are encoded in the same direction which is consistent with all other Chromadorea nematode mtDNAs published to date. Phylogenetic analysis based on concatenated amino acid sequence data of all 12 protein-coding genes showed that there were two large branches in the Strongyloidea nematodes, and S. equinus is genetically closer to S. vulgaris than to Cylicocyclus insignis in Strongylidae. This new mt genome provides a source of genetic markers for the molecular phylogeny and population genetics of equine strongyles. Copyright © 2015 Elsevier Inc. All rights reserved.

  16. Method for Veterbi decoding of large constraint length convolutional codes

    NASA Technical Reports Server (NTRS)

    Hsu, In-Shek (Inventor); Truong, Trieu-Kie (Inventor); Reed, Irving S. (Inventor); Jing, Sun (Inventor)

    1988-01-01

    A new method of Viterbi decoding of convolutional codes lends itself to a pipline VLSI architecture using a single sequential processor to compute the path metrics in the Viterbi trellis. An array method is used to store the path information for NK intervals where N is a number, and K is constraint length. The selected path at the end of each NK interval is then selected from the last entry in the array. A trace-back method is used for returning to the beginning of the selected path back, i.e., to the first time unit of the interval NK to read out the stored branch metrics of the selected path which correspond to the message bits. The decoding decision made in this way is no longer maximum likelihood, but can be almost as good, provided that constraint length K in not too small. The advantage is that for a long message, it is not necessary to provide a large memory to store the trellis derived information until the end of the message to select the path that is to be decoded; the selection is made at the end of every NK time unit, thus decoding a long message in successive blocks.

  17. Genome-wide computational identification of microRNAs and their targets in the deep-branching eukaryote Giardia lamblia.

    PubMed

    Zhang, Yan-Qiong; Chen, Dong-Liang; Tian, Hai-Feng; Zhang, Bao-Hong; Wen, Jian-Fan

    2009-10-01

    Using a combined computational program, we identified 50 potential microRNAs (miRNAs) in Giardia lamblia, one of the most primitive unicellular eukaryotes. These miRNAs are unique to G. lamblia and no homologues have been found in other organisms; miRNAs, currently known in other species, were not found in G. lamblia. This suggests that miRNA biogenesis and miRNA-mediated gene regulation pathway may evolve independently, especially in evolutionarily distant lineages. A majority (43) of the predicted miRNAs are located at one single locus; however, some miRNAs have two or more copies in the genome. Among the 58 miRNA genes, 28 are located in the intergenic regions whereas 30 are present in the anti-sense strands of the protein-coding sequences. Five predicted miRNAs are expressed in G. lamblia trophozoite cells evidenced by expressed sequence tags or RT-PCR. Thirty-seven identified miRNAs may target 50 protein-coding genes, including seven variant-specific surface proteins (VSPs). Our findings provide a clue that miRNA-mediated gene regulation may exist in the early stage of eukaryotic evolution, suggesting that it is an important regulation system ubiquitous in eukaryotes.

  18. Determinate growth and modularity in a gorgonian octocoral.

    PubMed

    Lasker, Howard R; Boller, Michael L; Castanaro, John; Sánchez, Juan Armando

    2003-12-01

    Growth rates of branches of colonies of the gorgonian Pseudopterogorgia elisabethae were monitored for 2 years on a reef at San Salvador Island, Bahamas. Images of 261 colonies were made at 6-month intervals and colony and branch growth analyzed. Branch growth rates differed between colonies and between the time intervals in which the measurements were made. Colonies developed a plumelike morphology through a pattern of branch origination and determinate growth in which branch growth rates were greatest at the time the branch originated and branches seldom grew beyond a length of 8 cm. A small number of branches had greater growth rates, did not stop growing, and were sites for the origination of subsequent "generations" of branches. The rate of branch origination decreased with each generation of branching, and branch growth rates were lower on larger colonies, leading to determinate colony growth. Although colonial invertebrates like P. elisabethae grow through the addition of polyps, branches behave as modules with determinate growth. Colony form and size is generated by the iterative addition of branches.

  19. Branch Width and Height Influence the Incorporation of Branches into Foraging Trails and Travel Speed in Leafcutter Ants Atta cephalotes (L.) (Hymenoptera: Formicidae).

    PubMed

    Freeman, B M; Chaves-Campos, J

    2016-06-01

    Fallen branches are often incorporated into Atta cephalotes (L.) foraging trails to optimize leaf tissue transport rates and economize trail maintenance. Recent studies in lowlands show laden A. cephalotes travel faster across fallen branches than on ground, but more slowly ascending or descending a branch. The latter is likely because (1) it is difficult to travel up or downhill and (2) bottlenecks occur when branches are narrower than preceding trail. Hence, both branch height and width should determine whether branches decrease net travel times, but no study has evaluated it yet. Laden A. cephalotes were timed in relation to branch width and height across segments preceding, accessing, across, and departing a fallen branch in the highlands of Costa Rica. Ants traveled faster on branches than on cleared segments of trunk-trail, but accelerated when ascending or descending the branch-likely because of the absence of bottlenecks during the day in the highlands. Branch size did not affect ant speed in observed branches; the majority of which (22/24) varied from 11 to 120 mm in both height and width (average 66 mm in both cases). To determine whether ants exclude branches outside this range, ants were offered the choice between branches within this range and branches that were taller/wider than 120 mm. Ants strongly preferred the former. Our results indicate that A. cephalotes can adjust their speed to compensate for the difficulty of traveling on branch slopes. More generally, branch size should be considered when studying ant foraging efficiency.

  20. Spatial Arrangement of Branches in Relation to Slope and Neighbourhood Competition

    PubMed Central

    SUMIDA, AKIHIRO; TERAZAWA, IKUE; TOGASHI, ASAKO; KOMIYAMA, AKIRA

    2002-01-01

    To gain a better understanding of the effects of spatial structure on patterns of neighbourhood competition among hardwood trees, the three‐dimensional extension of primary branches was surveyed for ten community‐grown Castanea crenata (Fagaceae) trees with respect to the positioning of neighbouring branches and the slope of the forest floor. There were significantly more branches extending towards the lower side of the slope than towards the upper side, but structural properties such as branch length and vertical angle were not affected by slope. When horizontal extension of a branch towards its neighbour was compared for a C. crenata branch and a neighbouring heterospecific, the former was significantly narrower than the latter when the inter‐branch distance (horizontal distance between the base positions of two neighbouring branches) was short (< approx. 5 m). Castanea crenata branches tended to extend in a direction avoiding neighbouring branches of heterospecifics when the inter‐branch distance was short. Furthermore, for an inter‐branch distance <3 m, the horizontal extension of a C. crenata branch was less when it was neighbouring a heterospecific branch than when neighbouring a conspecific branch. These results suggest that horizontal extension of C. crenata branches is more prone to spatial invasion by nearby neighbouring branches of heterospecifics, and that the invasion can be lessened when C. crenata trees are spatially aggregated. The reason why such an arrangement occurs is discussed in relation to the later leaf‐flush of C. crenata compared with that of other species in the forest. PMID:12096742

  1. Tree Branching: Leonardo da Vinci's Rule versus Biomechanical Models

    PubMed Central

    Minamino, Ryoko; Tateno, Masaki

    2014-01-01

    This study examined Leonardo da Vinci's rule (i.e., the sum of the cross-sectional area of all tree branches above a branching point at any height is equal to the cross-sectional area of the trunk or the branch immediately below the branching point) using simulations based on two biomechanical models: the uniform stress and elastic similarity models. Model calculations of the daughter/mother ratio (i.e., the ratio of the total cross-sectional area of the daughter branches to the cross-sectional area of the mother branch at the branching point) showed that both biomechanical models agreed with da Vinci's rule when the branching angles of daughter branches and the weights of lateral daughter branches were small; however, the models deviated from da Vinci's rule as the weights and/or the branching angles of lateral daughter branches increased. The calculated values of the two models were largely similar but differed in some ways. Field measurements of Fagus crenata and Abies homolepis also fit this trend, wherein models deviated from da Vinci's rule with increasing relative weights of lateral daughter branches. However, this deviation was small for a branching pattern in nature, where empirical measurements were taken under realistic measurement conditions; thus, da Vinci's rule did not critically contradict the biomechanical models in the case of real branching patterns, though the model calculations described the contradiction between da Vinci's rule and the biomechanical models. The field data for Fagus crenata fit the uniform stress model best, indicating that stress uniformity is the key constraint of branch morphology in Fagus crenata rather than elastic similarity or da Vinci's rule. On the other hand, mechanical constraints are not necessarily significant in the morphology of Abies homolepis branches, depending on the number of daughter branches. Rather, these branches were often in agreement with da Vinci's rule. PMID:24714065

  2. Tree branching: Leonardo da Vinci's rule versus biomechanical models.

    PubMed

    Minamino, Ryoko; Tateno, Masaki

    2014-01-01

    This study examined Leonardo da Vinci's rule (i.e., the sum of the cross-sectional area of all tree branches above a branching point at any height is equal to the cross-sectional area of the trunk or the branch immediately below the branching point) using simulations based on two biomechanical models: the uniform stress and elastic similarity models. Model calculations of the daughter/mother ratio (i.e., the ratio of the total cross-sectional area of the daughter branches to the cross-sectional area of the mother branch at the branching point) showed that both biomechanical models agreed with da Vinci's rule when the branching angles of daughter branches and the weights of lateral daughter branches were small; however, the models deviated from da Vinci's rule as the weights and/or the branching angles of lateral daughter branches increased. The calculated values of the two models were largely similar but differed in some ways. Field measurements of Fagus crenata and Abies homolepis also fit this trend, wherein models deviated from da Vinci's rule with increasing relative weights of lateral daughter branches. However, this deviation was small for a branching pattern in nature, where empirical measurements were taken under realistic measurement conditions; thus, da Vinci's rule did not critically contradict the biomechanical models in the case of real branching patterns, though the model calculations described the contradiction between da Vinci's rule and the biomechanical models. The field data for Fagus crenata fit the uniform stress model best, indicating that stress uniformity is the key constraint of branch morphology in Fagus crenata rather than elastic similarity or da Vinci's rule. On the other hand, mechanical constraints are not necessarily significant in the morphology of Abies homolepis branches, depending on the number of daughter branches. Rather, these branches were often in agreement with da Vinci's rule.

  3. Basic concepts of quantum interference and electron transport in single-molecule electronics.

    PubMed

    Lambert, C J

    2015-02-21

    This tutorial outlines the basic theoretical concepts and tools which underpin the fundamentals of phase-coherent electron transport through single molecules. The key quantity of interest is the transmission coefficient T(E), which yields the electrical conductance, current-voltage relations, the thermopower S and the thermoelectric figure of merit ZT of single-molecule devices. Since T(E) is strongly affected by quantum interference (QI), three manifestations of QI in single-molecules are discussed, namely Mach-Zehnder interferometry, Breit-Wigner resonances and Fano resonances. A simple MATLAB code is provided, which allows the novice reader to explore QI in multi-branched structures described by a tight-binding (Hückel) Hamiltonian. More generally, the strengths and limitations of materials-specific transport modelling based on density functional theory are discussed.

  4. Rostral horn evolution among agamid lizards of the genus ceratophora endemic to Sri Lanka

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

    Schulte II, James A.; Macey, J. Robert; Pethiyagoda, Rohan

    2001-07-10

    The first phylogenetic hypothesis for the Sri Lankan agamid lizard genus Ceratophora is presented based on 1670 aligned base positions (472 parsimony informative) of mitochondrial DNA sequences, representing coding regions for eight tRNAs, ND2, and portions of ND1 and COI. Phylogenetic analysis reveals multiple origins and possibly losses of rostral horns in the evolutionary history of Ceratophora. Our data suggest a middle Miocene origin of Ceratophora with the most recent branching of recognized species occurring at the Pliocene/Pleistocene boundary. Haplotype divergence suggests that an outgroup species, Lyriocephalus scutatus, dates at least to the Pliocene. These phylogenetic results provide a frameworkmore » for comparative studies of the behavioral ecological importance of horn evolution in this group.« less

  5. Response patterns in adult forest trees to chronic ozone stress: identification of variations and consistencies.

    PubMed

    Nunn, Angela J; Reiter, Ilja M; Häberle, Karl-Heinz; Langebartels, Christian; Bahnweg, Günther; Pretzsch, Hans; Sandermann, Heinrich; Matyssek, Rainer

    2005-08-01

    The responsiveness of adult beech and spruce trees to chronic O(3) stress was studied at a free-air O(3) exposure experiment in Freising/Germany. Over three growing seasons, gas exchange characteristics, biochemical parameters, macroscopic O(3) injury and the phenology of leaf organs were investigated, along with assessments of branch and stem growth as indications of tree performance. To assess response pattern to chronic O(3) stress in adult forest trees, we introduce a new evaluation approach, which provides a comprehensive, readily accomplishable overview across several tree-internal scaling levels, different canopy regions and growing seasons. This new approach, based on a three-grade colour coding, combines statistical analysis and the proficient ability of the "human eye" in pattern recognition.

  6. Development of methodologies for the estimation of thermal properties associated with aerospace vehicles

    NASA Technical Reports Server (NTRS)

    Scott, Elaine P.

    1993-01-01

    Thermal stress analyses are an important aspect in the development of aerospace vehicles such as the National Aero-Space Plane (NASP) and the High-Speed Civil Transport (HSCT) at NASA-LaRC. These analyses require knowledge of the temperature within the structures which consequently necessitates the need for thermal property data. The initial goal of this research effort was to develop a methodology for the estimation of thermal properties of aerospace structural materials at room temperature and to develop a procedure to optimize the estimation process. The estimation procedure was implemented utilizing a general purpose finite element code. In addition, an optimization procedure was developed and implemented to determine critical experimental parameters to optimize the estimation procedure. Finally, preliminary experiments were conducted at the Aircraft Structures Branch (ASB) laboratory.

  7. A theoretical and observational study of the Red Giant Branch phase transition in Magellanic Cloud clusters - A progress report

    NASA Technical Reports Server (NTRS)

    Buonanno, R.; Corsi, C. E.; Fusi Pecci, F.; Greggio, L.; Renzini, A.; Sweigart, A. V.

    1986-01-01

    Preliminary results are reported for an investigation comparing theoretical models of the sudden appearance of an extended RGB (and its effects on the spectral energy distributions of stellar populations) with data from ESO CCD observations of clusters in the LMC and SMC. Isochrones for the entire RGB are being constructed on the basis of 100 new evolutionary sequences (calculated using the evolution code of Sweigart and Gross, 1976 and 1978) to permit determination of synthetic colors and spectral energy distributions. The observations so far indicate a main sequence about 0.1 mag redder than that predicted by the present models or by the isochrones of VandenBerg and Bell (1985), and fail to show a B-V color difference at the RGB phase transition.

  8. Development of methodologies for the estimation of thermal properties associated with aerospace vehicles

    NASA Astrophysics Data System (ADS)

    Scott, Elaine P.

    1993-12-01

    Thermal stress analyses are an important aspect in the development of aerospace vehicles such as the National Aero-Space Plane (NASP) and the High-Speed Civil Transport (HSCT) at NASA-LaRC. These analyses require knowledge of the temperature within the structures which consequently necessitates the need for thermal property data. The initial goal of this research effort was to develop a methodology for the estimation of thermal properties of aerospace structural materials at room temperature and to develop a procedure to optimize the estimation process. The estimation procedure was implemented utilizing a general purpose finite element code. In addition, an optimization procedure was developed and implemented to determine critical experimental parameters to optimize the estimation procedure. Finally, preliminary experiments were conducted at the Aircraft Structures Branch (ASB) laboratory.

  9. Dynamic rupture models of earthquakes on the Bartlett Springs Fault, Northern California

    USGS Publications Warehouse

    Lozos, Julian C.; Harris, Ruth A.; Murray, Jessica R.; Lienkaemper, James J.

    2015-01-01

    The Bartlett Springs Fault (BSF), the easternmost branch of the northern San Andreas Fault system, creeps along much of its length. Geodetic data for the BSF are sparse, and surface creep rates are generally poorly constrained. The two existing geodetic slip rate inversions resolve at least one locked patch within the creeping zones. We use the 3-D finite element code FaultMod to conduct dynamic rupture models based on both geodetic inversions, in order to determine the ability of rupture to propagate into the creeping regions, as well as to assess possible magnitudes for BSF ruptures. For both sets of models, we find that the distribution of aseismic creep limits the extent of coseismic rupture, due to the contrast in frictional properties between the locked and creeping regions.

  10. State-of-the-Art for Small Satellite Propulsion Systems

    NASA Technical Reports Server (NTRS)

    Parker, Khary I.

    2016-01-01

    The NASA/Goddard Space Flight Center (NASA/GSFC) is in the business of performing world-class, space-based, scientific research on various spacecraft platforms, which now include small satellites (SmallSats). In order to perform world class science on a SmallSat, NASA/GSFC requires that their components be highly reliable, high performing, have low power consumption, at the lowest cost possible. The Propulsion Branch (Code 597) at NASA/GSFC has conducted a SmallSat propulsion system survey to determine their availability and level of development. Based on publicly available information and unique features, this paper discusses some of the existing SmallSat propulsion systems.. The systems described in this paper do not indicate or imply any endorsement by NASA or NASA/GSFC over those not included.

  11. The role of branch architecture in assimilate production and partitioning: the example of apple (Malus domestica)

    PubMed Central

    Fanwoua, Julienne; Bairam, Emna; Delaire, Mickael; Buck-Sorlin, Gerhard

    2014-01-01

    Understanding the role of branch architecture in carbon production and allocation is essential to gain more insight into the complex process of assimilate partitioning in fruit trees. This mini review reports on the current knowledge of the role of branch architecture in carbohydrate production and partitioning in apple. The first-order carrier branch of apple illustrates the complexity of branch structure emerging from bud activity events and encountered in many fruit trees. Branch architecture influences carbon production by determining leaf exposure to light and by affecting leaf internal characteristics related to leaf photosynthetic capacity. The dynamics of assimilate partitioning between branch organs depends on the stage of development of sources and sinks. The sink strength of various branch organs and their relative positioning on the branch also affect partitioning. Vascular connections between branch organs determine major pathways for branch assimilate transport. We propose directions for employing a modeling approach to further elucidate the role of branch architecture on assimilate partitioning. PMID:25071813

  12. Novel non-parametric models to estimate evolutionary rates and divergence times from heterochronous sequence data.

    PubMed

    Fourment, Mathieu; Holmes, Edward C

    2014-07-24

    Early methods for estimating divergence times from gene sequence data relied on the assumption of a molecular clock. More sophisticated methods were created to model rate variation and used auto-correlation of rates, local clocks, or the so called "uncorrelated relaxed clock" where substitution rates are assumed to be drawn from a parametric distribution. In the case of Bayesian inference methods the impact of the prior on branching times is not clearly understood, and if the amount of data is limited the posterior could be strongly influenced by the prior. We develop a maximum likelihood method--Physher--that uses local or discrete clocks to estimate evolutionary rates and divergence times from heterochronous sequence data. Using two empirical data sets we show that our discrete clock estimates are similar to those obtained by other methods, and that Physher outperformed some methods in the estimation of the root age of an influenza virus data set. A simulation analysis suggests that Physher can outperform a Bayesian method when the real topology contains two long branches below the root node, even when evolution is strongly clock-like. These results suggest it is advisable to use a variety of methods to estimate evolutionary rates and divergence times from heterochronous sequence data. Physher and the associated data sets used here are available online at http://code.google.com/p/physher/.

  13. Probabilistic modeling of the evolution of gene synteny within reconciled phylogenies

    PubMed Central

    2015-01-01

    Background Most models of genome evolution concern either genetic sequences, gene content or gene order. They sometimes integrate two of the three levels, but rarely the three of them. Probabilistic models of gene order evolution usually have to assume constant gene content or adopt a presence/absence coding of gene neighborhoods which is blind to complex events modifying gene content. Results We propose a probabilistic evolutionary model for gene neighborhoods, allowing genes to be inserted, duplicated or lost. It uses reconciled phylogenies, which integrate sequence and gene content evolution. We are then able to optimize parameters such as phylogeny branch lengths, or probabilistic laws depicting the diversity of susceptibility of syntenic regions to rearrangements. We reconstruct a structure for ancestral genomes by optimizing a likelihood, keeping track of all evolutionary events at the level of gene content and gene synteny. Ancestral syntenies are associated with a probability of presence. We implemented the model with the restriction that at most one gene duplication separates two gene speciations in reconciled gene trees. We reconstruct ancestral syntenies on a set of 12 drosophila genomes, and compare the evolutionary rates along the branches and along the sites. We compare with a parsimony method and find a significant number of results not supported by the posterior probability. The model is implemented in the Bio++ library. It thus benefits from and enriches the classical models and methods for molecular evolution. PMID:26452018

  14. Remarkable sequence conservation of the last intron in the PKD1 gene.

    PubMed

    Rodova, Marianna; Islam, M Rafiq; Peterson, Kenneth R; Calvet, James P

    2003-10-01

    The last intron of the PKD1 gene (intron 45) was found to have exceptionally high sequence conservation across four mammalian species: human, mouse, rat, and dog. This conservation did not extend to the comparable intron in pufferfish. Pairwise comparisons for intron 45 showed 91% identity (human vs. dog) to 100% identity (mouse vs. rat) for an average for all four species of 94% identity. In contrast, introns 43 and 44 of the PKD1 gene had average pairwise identities of 57% and 54%, and exons 43, 44, and 45 and the coding region of exon 46 had average pairwise identities of 80%, 84%, 82%, and 80%. Intron 45 is 90 to 95 bp in length, with the major region of sequence divergence being in a central 4-bp to 9-bp variable region. RNA secondary structure analysis of intron 45 predicts a branching stem-loop structure in which the central variable region lies in one loop and the putative branch point sequence lies in another loop, suggesting that the intron adopts a specific stem-loop structure that may be important for its removal. Although intron 45 appears to conform to the class of small, G-triplet-containing introns that are spliced by a mechanism utilizing intron definition, its high sequence conservation may be a reflection of constraints imposed by a unique mechanism that coordinates splicing of this last PKD1 intron with polyadenylation.

  15. The influence of bremsstrahlung on electric discharge streamers in N2, O2 gas mixtures

    NASA Astrophysics Data System (ADS)

    Köhn, C.; Chanrion, O.; Neubert, T.

    2017-01-01

    Streamers are ionization filaments of electric gas discharges. Negative polarity streamers propagate primarily through electron impact ionization, whereas positive streamers in air develop through ionization of oxygen by UV photons emitted by excited nitrogen; however, experiments show that positive streamers may develop even for low oxygen concentrations. Here we explore if bremsstrahlung ionization facilitates positive streamer propagation. To discriminate between effects of UV and bremsstrahlung ionization, we simulate the formation of a double headed streamer at three different oxygen concentrations: no oxygen, 1 ppm O2 and 20% O2, as in air. At these oxygen levels, UV-relative to bremsstrahlung ionization is zero, small, and large. The simulations are conducted with a particle-in-cell code in a cylindrically symmetric configuration at ambient electric field magnitudes three times the conventional breakdown field. We find that bremsstrahlung induced ionization in air, contrary to expectations, reduces the propagation velocity of both positive and negative streamers by about 15%. At low oxygen levels, positive streamers stall; however, bremsstrahlung creates branching sub-streamers emerging from the streamer front that allow propagation of the streamer. Negative streamers propagate more readily forming branching sub-streamers. These results are in agreement with experiments. At both polarities, ionization patches are created ahead of the streamer front. Electrons with the highest energies are in the sub-streamer tips and the patches.

  16. Partial androgen insensitivity syndrome caused by a deep intronic mutation creating an alternative splice acceptor site of the AR gene.

    PubMed

    Ono, Hiroyuki; Saitsu, Hirotomo; Horikawa, Reiko; Nakashima, Shinichi; Ohkubo, Yumiko; Yanagi, Kumiko; Nakabayashi, Kazuhiko; Fukami, Maki; Fujisawa, Yasuko; Ogata, Tsutomu

    2018-02-02

    Although partial androgen insensitivity syndrome (PAIS) is caused by attenuated responsiveness to androgens, androgen receptor gene (AR) mutations on the coding regions and their splice sites have been identified only in <25% of patients with a diagnosis of PAIS. We performed extensive molecular studies including whole exome sequencing in a Japanese family with PAIS, identifying a deep intronic variant beyond the branch site at intron 6 of AR (NM_000044.4:c.2450-42 G > A). This variant created the splice acceptor motif that was accompanied by pyrimidine-rich sequence and two candidate branch sites. Consistent with this, reverse transcriptase (RT)-PCR experiments for cycloheximide-treated lymphoblastoid cell lines revealed a relatively large amount of aberrant mRNA produced by the newly created splice acceptor site and a relatively small amount of wildtype mRNA produced by the normal splice acceptor site. Furthermore, most of the aberrant mRNA was shown to undergo nonsense mediated decay (NMD) and, if a small amount of aberrant mRNA may have escaped NMD, such mRNA was predicted to generate a truncated AR protein missing some functional domains. These findings imply that the deep intronic mutation creating an alternative splice acceptor site resulted in the production of a relatively small amount of wildtype AR mRNA, leading to PAIS.

  17. StrainSeeker: fast identification of bacterial strains from raw sequencing reads using user-provided guide trees.

    PubMed

    Roosaare, Märt; Vaher, Mihkel; Kaplinski, Lauris; Möls, Märt; Andreson, Reidar; Lepamets, Maarja; Kõressaar, Triinu; Naaber, Paul; Kõljalg, Siiri; Remm, Maido

    2017-01-01

    Fast, accurate and high-throughput identification of bacterial isolates is in great demand. The present work was conducted to investigate the possibility of identifying isolates from unassembled next-generation sequencing reads using custom-made guide trees. A tool named StrainSeeker was developed that constructs a list of specific k -mers for each node of any given Newick-format tree and enables the identification of bacterial isolates in 1-2 min. It uses a novel algorithm, which analyses the observed and expected fractions of node-specific k -mers to test the presence of each node in the sample. This allows StrainSeeker to determine where the isolate branches off the guide tree and assign it to a clade whereas other tools assign each read to a reference genome. Using a dataset of 100 Escherichia coli isolates, we demonstrate that StrainSeeker can predict the clades of E. coli with 92% accuracy and correct tree branch assignment with 98% accuracy. Twenty-five thousand Illumina HiSeq reads are sufficient for identification of the strain. StrainSeeker is a software program that identifies bacterial isolates by assigning them to nodes or leaves of a custom-made guide tree. StrainSeeker's web interface and pre-computed guide trees are available at http://bioinfo.ut.ee/strainseeker. Source code is stored at GitHub: https://github.com/bioinfo-ut/StrainSeeker.

  18. Neural assembly computing.

    PubMed

    Ranhel, João

    2012-06-01

    Spiking neurons can realize several computational operations when firing cooperatively. This is a prevalent notion, although the mechanisms are not yet understood. A way by which neural assemblies compute is proposed in this paper. It is shown how neural coalitions represent things (and world states), memorize them, and control their hierarchical relations in order to perform algorithms. It is described how neural groups perform statistic logic functions as they form assemblies. Neural coalitions can reverberate, becoming bistable loops. Such bistable neural assemblies become short- or long-term memories that represent the event that triggers them. In addition, assemblies can branch and dismantle other neural groups generating new events that trigger other coalitions. Hence, such capabilities and the interaction among assemblies allow neural networks to create and control hierarchical cascades of causal activities, giving rise to parallel algorithms. Computing and algorithms are used here as in a nonstandard computation approach. In this sense, neural assembly computing (NAC) can be seen as a new class of spiking neural network machines. NAC can explain the following points: 1) how neuron groups represent things and states; 2) how they retain binary states in memories that do not require any plasticity mechanism; and 3) how branching, disbanding, and interaction among assemblies may result in algorithms and behavioral responses. Simulations were carried out and the results are in agreement with the hypothesis presented. A MATLAB code is available as a supplementary material.

  19. Cloning and characterization of farnesyl pyrophosphate synthase from the highly branched isoprenoid producing diatom Rhizosolenia setigera

    PubMed Central

    Ferriols, Victor Marco Emmanuel N.; Yaginuma, Ryoko; Adachi, Masao; Takada, Kentaro; Matsunaga, Shigeki; Okada, Shigeru

    2015-01-01

    The diatom Rhizosolenia setigera Brightwell produces highly branched isoprenoid (HBI) hydrocarbons that are ubiquitously present in marine environments. The hydrocarbon composition of R. setigera varies between C25 and C30 HBIs depending on the life cycle stage with regard to auxosporulation. To better understand how these hydrocarbons are biosynthesized, we characterized the farnesyl pyrophosphate (FPP) synthase (FPPS) enzyme of R. setigera. An isolated 1465-bp cDNA clone contained an open reading frame spanning 1299-bp encoding a protein with 432 amino acid residues. Expression of the RsFPPS cDNA coding region in Escherichia coli produced a protein that exhibited FPPS activity in vitro. A reduction in HBI content from diatoms treated with an FPPS inhibitor, risedronate, suggested that RsFPPS supplies precursors for HBI biosynthesis. Product analysis by gas chromatography-mass spectrometry also revealed that RsFPPS produced small amounts of the cis-isomers of geranyl pyrophosphate and FPP, candidate precursors for the cis-isomers of HBIs previously characterized. Furthermore, RsFPPS gene expression at various life stages of R. setigera in relation to auxosporulation were also analyzed. Herein, we present data on the possible role of RsFPPS in HBI biosynthesis, and it is to our knowledge the first instance that an FPPS was cloned and characterized from a diatom. PMID:25996801

  20. Higher level phylogenetic relationships within the bamboos (Poaceae: Bambusoideae) based on five plastid markers.

    PubMed

    Kelchner, Scot A

    2013-05-01

    Bamboos are large perennial grasses of temperate and tropical forests worldwide. Two general growth forms exist: the economically and ecologically important woody bamboos (tribes Arundinarieae and Bambuseae), and the understory herbaceous bamboos (tribe Olyreae). Evolutionary relationships among the 1400+described species have been difficult to resolve with confidence. Comparative analysis of bamboo plastid (chloroplast) DNA has revealed three to five major lineages that show distinct biogeographic distributions. Taxon sampling across tribes and subtribes has been incomplete and most published data sets include a relatively small number of nucleotide characters. Branching order among lineages is often poorly supported, and in more than one study herbaceous bamboos form a clade within the woody bamboos. In this paper, the Bamboo Phylogeny Group presents the most complete phylogeny estimation to date of bamboo tribes and subtribes using 6.7 kb of coding and noncoding sequence data and 37 microstructural characters from the chloroplast genome. Quality of data is assessed, as is the possibility of long branch attraction, the degree of character conflict at key nodes in the tree, and the legitimacy of three alternative hypotheses of relationship. Four major plastid lineages are recognized: temperate woody, paleotropical woody, neotropical woody, and herbaceous bamboos. Woody bamboos are resolved as paraphyletic with respect to Olyreae but SH tests cannot reject monophyly of woody species (Arundinarieae+Bambuseae). Published by Elsevier Inc.

  1. Three ancient hormonal cues co-ordinate shoot branching in a moss.

    PubMed

    Coudert, Yoan; Palubicki, Wojtek; Ljung, Karin; Novak, Ondrej; Leyser, Ottoline; Harrison, C Jill

    2015-03-25

    Shoot branching is a primary contributor to plant architecture, evolving independently in flowering plant sporophytes and moss gametophytes. Mechanistic understanding of branching is largely limited to flowering plants such as Arabidopsis, which have a recent evolutionary origin. We show that in gametophytic shoots of Physcomitrella, lateral branches arise by re-specification of epidermal cells into branch initials. A simple model co-ordinating the activity of leafy shoot tips can account for branching patterns, and three known and ancient hormonal regulators of sporophytic branching interact to generate the branching pattern- auxin, cytokinin and strigolactone. The mode of auxin transport required in branch patterning is a key divergence point from known sporophytic pathways. Although PIN-mediated basipetal auxin transport regulates branching patterns in flowering plants, this is not so in Physcomitrella, where bi-directional transport is required to generate realistic branching patterns. Experiments with callose synthesis inhibitors suggest plasmodesmal connectivity as a potential mechanism for transport.

  2. Using predicated execution to improve the performance of a dynamically scheduled machine with speculative execution

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

    Chang, P.Y.; Hao, E.; Patt, Y.

    Conditional branches incur a severe performance penalty in wide-issue, deeply pipelined processors. Speculative execution and predicated execution are two mechanisms that have been proposed for reducing this penalty. Speculative execution can completely eliminate the penalty associated with a particular branch, but requires accurate branch prediction to be effective. Predicated execution does not require accurate branch prediction to eliminate the branch penalty, but is not applicable to all branches and can increase the latencies within the program. This paper examines the performance benefit of using both mechanisms to reduce the branch execution penalty. Predicated execution is used to handle the hard-to-protectmore » branches and speculative execution is used to handle the remaining branches. The hard-to-predict branches within the program are determined by profiling. We show that this approach can significantly reduce the branch execution penalty suffered by wide-issue processors.« less

  3. Existing branches correlatively inhibit further branching in Trifolium repens: possible mechanisms

    PubMed Central

    Thomas, R. G.; Hay, M. J. M.

    2011-01-01

    In Trifolium repens removal of any number of existing branches distal to a nodal root stimulates development of axillary buds further along the stem such that the complement of branches distal to a nodal root remains constant. This study aimed to assess possible mechanisms by which existing branches correlatively inhibit the outgrowth of axillary buds distal to them. Treatments were applied to basal branches to evaluate the roles of three postulated inhibitory mechanisms: (I) the transport of a phloem-mobile inhibitory feedback signal from branches into the main stem; (II) the polar flow of auxin from branches into the main stem acting to limit further branch development; or (III) the basal branches functioning as sinks for a net root-derived stimulatory signal (NRS). Results showed that transport of auxin, or of a non-auxin phloem-mobile signal, from basal branches did not influence regulation of correlative inhibition and were consistent with the possibility that the intra-plant distribution of NRS could be involved in the correlative inhibition of distal buds by basal branches. This study supports existing evidence that regulation of branching in T. repens is dominated by a root-derived stimulatory signal, initially distributed via the xylem, the characterization of which will progress the generic understanding of branching regulation. PMID:21071681

  4. Concerted suppression of all starch branching enzyme genes in barley produces amylose-only starch granules

    PubMed Central

    2012-01-01

    Background Starch is stored in higher plants as granules composed of semi-crystalline amylopectin and amorphous amylose. Starch granules provide energy for the plant during dark periods and for germination of seeds and tubers. Dietary starch is also a highly glycemic carbohydrate being degraded to glucose and rapidly absorbed in the small intestine. But a portion of dietary starch, termed “resistant starch” (RS) escapes digestion and reaches the large intestine, where it is fermented by colonic bacteria producing short chain fatty acids (SCFA) which are linked to several health benefits. The RS is preferentially derived from amylose, which can be increased by suppressing amylopectin synthesis by silencing of starch branching enzymes (SBEs). However all the previous works attempting the production of high RS crops resulted in only partly increased amylose-content and/or significant yield loss. Results In this study we invented a new method for silencing of multiple genes. Using a chimeric RNAi hairpin we simultaneously suppressed all genes coding for starch branching enzymes (SBE I, SBE IIa, SBE IIb) in barley (Hordeum vulgare L.), resulting in production of amylose-only starch granules in the endosperm. This trait was segregating 3:1. Amylose-only starch granules were irregularly shaped and showed peculiar thermal properties and crystallinity. Transgenic lines retained high-yield possibly due to a pleiotropic upregualtion of other starch biosynthetic genes compensating the SBEs loss. For gelatinized starch, a very high content of RS (65 %) was observed, which is 2.2-fold higher than control (29%). The amylose-only grains germinated with same frequency as control grains. However, initial growth was delayed in young plants. Conclusions This is the first time that pure amylose has been generated with high yield in a living organism. This was achieved by a new method of simultaneous suppression of the entire complement of genes encoding starch branching enzymes. We demonstrate that amylopectin is not essential for starch granule crystallinity and integrity. However the slower initial growth of shoots from amylose-only grains may be due to an important physiological role played by amylopectin ordered crystallinity for rapid starch remobilization explaining the broad conservation in the plant kingdom of the amylopectin structure. PMID:23171412

  5. [Application and analysis of abdominal aortic branch malperfusion pattern in thoracic endovascular aortic repair for Stanford B aortic dissection].

    PubMed

    Han, X F; Guo, X; Li, T Z; Liu, G R; Huang, L J

    2017-12-18

    To evaluate the efficiency of thoracic endovascular aortic repair (TEVAR) in dealing with abdominal aortic branch malperfusion based on the analysis of aortic computed tomography angiography (CTA) images in pre- and post-TEVAR. Retrospective analysis from September 2015 to March 2016 in single institution to 32 patients, diagnosed as Stanford B aortic dissection with abdominal aortic branch malperfusion, CTA images in pre- and post-TEVAR were collected. Based on the aortic branch malperfusion pattern redefined by Nagamine, we identified and characterized branch malperfusion pattern for four abdominal aortic branches (celiac trunk, superior mesenteric artery, bilateral renal artery) in statistical analysis. In the four abdominal aortic branches (total 128 branches), 86 branches (67.2%) expressed with Class I patterns, in which subtype I-b presented with 0.8%, subtype I-c with 5.5%; 14 branches (10.9%) expressed with Class II patterns, in which subtype II-b-1 with 3.9%, subtype II-b-2 with 3.1%; 16 branches (12.5%) expressed with Class III patterns, all with subtype III-a, no subtype III-b and III-c presented. The remaining 12 branches were normal. The 100% successful rate of TEVAR obtained in 32 patients performed. The mean following-up was 4 months. Aortic CTA showed that among the 14 "high-risk" abdominal aortic branch malperfusion, 13 (92.9%) with obvious branch malperfusion in post-TEVAR were observed to improve, and the remaining one branch malperfusion (7.1%) was observed to change from subtype I-b to I-c. Few ratios in abdominal aortic branches suffered with obvious malperfusion complicated by Stanford B aortic dissection. For branches with "high-risk" malperfusion pattern, optimal changes were observed in abdominal aortic branch without revascularization in post-TEVAR, as well other branches with non-"high-risk" pattern perfusion were mostly stable in post-TEVAR. It could be of profound benefit to extend branch malperfusion patterns redefined by Nagamine in clinical practice to assess aortic dissection and in further guide for revascularization or not.

  6. Branching habit and the allocation of reproductive resources in conifers.

    PubMed

    Leslie, Andrew B

    2012-09-01

    Correlated relationships between branch thickness, branch density, and twig and leaf size have been used extensively to study the evolution of plant canopy architecture, but fewer studies have explored the impact of these relationships on the allocation of reproductive resources. This study quantifies pollen cone production in conifers, which have similar basic reproductive biology but vary dramatically in branching habit, in order to test how differences in branch diameter influence pollen cone size and the density with which they are deployed in the canopy. Measurements of canopy branch density, the number of cones per branch and cone size were used to estimate the amount of pollen cone tissues produced by 16 species in three major conifer clades. The number of pollen grains produced was also estimated using direct counts from individual pollen cones. The total amount of pollen cone tissues in the conifer canopy varied little among species and clades, although vegetative traits such as branch thickness, branch density and pollen cone size varied over several orders of magnitude. However, branching habit controls the way these tissues are deployed: taxa with small branches produce small pollen cones at a high density, while taxa with large branches produce large cones relatively sparsely. Conifers appear to invest similar amounts of energy in pollen production independent of branching habit. However, similar associations between branch thickness, branch density and pollen cone size are seen across conifers, including members of living and extinct groups not directly studied here. This suggests that reproductive features relating to pollen cone size are in large part a function of the evolution of vegetative morphology and branching habit.

  7. The Mitochondrial Genome and Transcriptome of the Basal Dinoflagellate Hematodinium sp.: Character Evolution within the Highly Derived Mitochondrial Genomes of Dinoflagellates

    PubMed Central

    Gornik, S. G.; Waller, R. F.

    2012-01-01

    The sister phyla dinoflagellates and apicomplexans inherited a drastically reduced mitochondrial genome (mitochondrial DNA, mtDNA) containing only three protein-coding (cob, cox1, and cox3) genes and two ribosomal RNA (rRNA) genes. In apicomplexans, single copies of these genes are encoded on the smallest known mtDNA chromosome (6 kb). In dinoflagellates, however, the genome has undergone further substantial modifications, including massive genome amplification and recombination resulting in multiple copies of each gene and gene fragments linked in numerous combinations. Furthermore, protein-encoding genes have lost standard stop codons, trans-splicing of messenger RNAs (mRNAs) is required to generate complete cox3 transcripts, and extensive RNA editing recodes most genes. From taxa investigated to date, it is unclear when many of these unusual dinoflagellate mtDNA characters evolved. To address this question, we investigated the mitochondrial genome and transcriptome character states of the deep branching dinoflagellate Hematodinium sp. Genomic data show that like later-branching dinoflagellates Hematodinium sp. also contains an inflated, heavily recombined genome of multicopy genes and gene fragments. Although stop codons are also lacking for cox1 and cob, cox3 still encodes a conventional stop codon. Extensive editing of mRNAs also occurs in Hematodinium sp. The mtDNA of basal dinoflagellate Hematodinium sp. indicates that much of the mtDNA modification in dinoflagellates occurred early in this lineage, including genome amplification and recombination, and decreased use of standard stop codons. Trans-splicing, on the other hand, occurred after Hematodinium sp. diverged. Only RNA editing presents a nonlinear pattern of evolution in dinoflagellates as this process occurs in Hematodinium sp. but is absent in some later-branching taxa indicating that this process was either lost in some lineages or developed more than once during the evolution of the highly unusual dinoflagellate mtDNA. PMID:22113794

  8. The mitochondrial genome and transcriptome of the basal dinoflagellate Hematodinium sp.: character evolution within the highly derived mitochondrial genomes of dinoflagellates.

    PubMed

    Jackson, C J; Gornik, S G; Waller, R F

    2012-01-01

    The sister phyla dinoflagellates and apicomplexans inherited a drastically reduced mitochondrial genome (mitochondrial DNA, mtDNA) containing only three protein-coding (cob, cox1, and cox3) genes and two ribosomal RNA (rRNA) genes. In apicomplexans, single copies of these genes are encoded on the smallest known mtDNA chromosome (6 kb). In dinoflagellates, however, the genome has undergone further substantial modifications, including massive genome amplification and recombination resulting in multiple copies of each gene and gene fragments linked in numerous combinations. Furthermore, protein-encoding genes have lost standard stop codons, trans-splicing of messenger RNAs (mRNAs) is required to generate complete cox3 transcripts, and extensive RNA editing recodes most genes. From taxa investigated to date, it is unclear when many of these unusual dinoflagellate mtDNA characters evolved. To address this question, we investigated the mitochondrial genome and transcriptome character states of the deep branching dinoflagellate Hematodinium sp. Genomic data show that like later-branching dinoflagellates Hematodinium sp. also contains an inflated, heavily recombined genome of multicopy genes and gene fragments. Although stop codons are also lacking for cox1 and cob, cox3 still encodes a conventional stop codon. Extensive editing of mRNAs also occurs in Hematodinium sp. The mtDNA of basal dinoflagellate Hematodinium sp. indicates that much of the mtDNA modification in dinoflagellates occurred early in this lineage, including genome amplification and recombination, and decreased use of standard stop codons. Trans-splicing, on the other hand, occurred after Hematodinium sp. diverged. Only RNA editing presents a nonlinear pattern of evolution in dinoflagellates as this process occurs in Hematodinium sp. but is absent in some later-branching taxa indicating that this process was either lost in some lineages or developed more than once during the evolution of the highly unusual dinoflagellate mtDNA.

  9. Modeling of current characteristics of segmented Langmuir probe on DEMETER

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

    Imtiaz, Nadia; Marchand, Richard; Lebreton, Jean-Pierre

    We model the current characteristics of the DEMETER Segmented Langmuir probe (SLP). The probe is used to measure electron density and temperature in the ionosphere at an altitude of approximately 700 km. It is also used to measure the plasma flow velocity in the satellite frame of reference. The probe is partitioned into seven collectors: six electrically insulated spherical segments and a guard electrode (the rest of the sphere and the small post). Comparisons are made between the predictions of the model and DEMETER measurements for actual ionospheric plasma conditions encountered along the satellite orbit. Segment characteristics are computed numericallymore » with PTetra, a three-dimensional particle in cell simulation code. In PTetra, space is discretized with an unstructured tetrahedral mesh, thus, enabling a good representation of the probe geometry. The model also accounts for several physical effects of importance in the interaction of spacecraft with the space environment. These include satellite charging, photoelectron, and secondary electron emissions. The model is electrostatic, but it accounts for the presence of a uniform background magnetic field. PTetra simulation results show different characteristics for the different probe segments. The current collected by each segment depends on its orientation with respect to the ram direction, the plasma composition, the magnitude, and the orientation of the magnetic field. It is observed that the presence of light H{sup +} ions leads to a significant increase in the ion current branch of the I-V curves of the negatively polarized SLP. The effect of the magnetic field is demonstrated by varying its magnitude and direction with respect to the reference magnetic field. It is found that the magnetic field appreciably affects the electron current branch of the I-V curves of certain segments on the SLP, whereas the ion current branch remains almost unaffected. PTetra simulations are validated by comparing the computed characteristics and their angular anisotropy with the DEMETER measurements, as simulation results are found to be in good agreement with the measurements.« less

  10. Occupational characteristics of cases with asbestos-related diseases in The Netherlands.

    PubMed

    Burdorf, Alex; Dahhan, Mohssine; Swuste, Paul

    2003-08-01

    To describe the occupational background of cases with an asbestos-related disease and to present overall mesothelioma risks across industries with historical exposure to asbestos. For the period 1990-2000, cases were collected from records held by two law firms. Information on jobs held, previous employers, activities performed and specific products used were obtained from patients themselves or next of kin. Branches of industry and occupations were coded and the likelihood of asbestos exposure was assessed. For each branch of industry, the overall risk of mesothelioma was calculated from the ratio of the observed number of mesothelioma cases and the cumulative population-at-risk in the period 1947-1960. In order to compare mesothelioma risks across different industries, risk ratios were calculated for the primary asbestos industry and asbestos user industries relative to all other branches of industry. In total, 710 mesotheliomas and 86 asbestosis cases were available. The average latency period was approximately 40 yr and the average duration of exposure was 22 yr. Ship building and maintenance contributed the largest number of cases (27%), followed by the construction industry (14%), the insulation industry (12%), and the navy and army, primarily related to ship building and maintenance (5%). In the insulation industry, the overall risk of mesothelioma was 5 out of 100 workers, and in the ship building industry, 1 out of 100 workers. The construction industry had an overall risk comparable with many other asbestos-using industries (7 per 10,000 workers), but due to its size claimed many mesothelioma cases. The majority of cases with asbestos-related diseases had experienced their first asbestos exposure prior to 1960. For cases with first asbestos exposure after 1960, a shift was observed from the primary asbestos industry towards asbestos-using industries, such as construction, petroleum refining, and train building and maintenance. Due to the long latency period, asbestos exposure from 1960 to 1980 will cause a considerable number of mesothelioma cases in the next two decades.

  11. Phylogenetic placement of the enigmatic parasite, Polypodium hydriforme, within the Phylum Cnidaria

    PubMed Central

    2008-01-01

    Background Polypodium hydriforme is a parasite with an unusual life cycle and peculiar morphology, both of which have made its systematic position uncertain. Polypodium has traditionally been considered a cnidarian because it possesses nematocysts, the stinging structures characteristic of this phylum. However, recent molecular phylogenetic studies using 18S rDNA sequence data have challenged this interpretation, and have shown that Polypodium is a close relative to myxozoans and together they share a closer affinity to bilaterians than cnidarians. Due to the variable rates of 18S rDNA sequences, these results have been suggested to be an artifact of long-branch attraction (LBA). A recent study, using multiple protein coding markers, shows that the myxozoan Buddenbrockia, is nested within cnidarians. Polypodium was not included in this study. To further investigate the phylogenetic placement of Polypodium, we have performed phylogenetic analyses of metazoans with 18S and partial 28S rDNA sequences in a large dataset that includes Polypodium and a comprehensive sampling of cnidarian taxa. Results Analyses of a combined dataset of 18S and partial 28S sequences, and partial 28S alone, support the placement of Polypodium within Cnidaria. Removal of the long-branched myxozoans from the 18S dataset also results in Polypodium being nested within Cnidaria. These results suggest that previous reports showing that Polypodium and Myxozoa form a sister group to Bilateria were an artifact of long-branch attraction. Conclusion By including 28S rDNA sequences and a comprehensive sampling of cnidarian taxa, we demonstrate that previously conflicting hypotheses concerning the phylogenetic placement of Polypodium can be reconciled. Specifically, the data presented provide evidence that Polypodium is indeed a cnidarian and is either the sister taxon to Hydrozoa, or part of the hydrozoan clade, Leptothecata. The former hypothesis is consistent with the traditional view that Polypodium should be placed in its own cnidarian class, Polypodiozoa. PMID:18471296

  12. Phylogenetic placement of the enigmatic parasite, Polypodium hydriforme, within the Phylum Cnidaria.

    PubMed

    Evans, Nathaniel M; Lindner, Alberto; Raikova, Ekaterina V; Collins, Allen G; Cartwright, Paulyn

    2008-05-09

    Polypodium hydriforme is a parasite with an unusual life cycle and peculiar morphology, both of which have made its systematic position uncertain. Polypodium has traditionally been considered a cnidarian because it possesses nematocysts, the stinging structures characteristic of this phylum. However, recent molecular phylogenetic studies using 18S rDNA sequence data have challenged this interpretation, and have shown that Polypodium is a close relative to myxozoans and together they share a closer affinity to bilaterians than cnidarians. Due to the variable rates of 18S rDNA sequences, these results have been suggested to be an artifact of long-branch attraction (LBA). A recent study, using multiple protein coding markers, shows that the myxozoan Buddenbrockia, is nested within cnidarians. Polypodium was not included in this study. To further investigate the phylogenetic placement of Polypodium, we have performed phylogenetic analyses of metazoans with 18S and partial 28S rDNA sequences in a large dataset that includes Polypodium and a comprehensive sampling of cnidarian taxa. Analyses of a combined dataset of 18S and partial 28S sequences, and partial 28S alone, support the placement of Polypodium within Cnidaria. Removal of the long-branched myxozoans from the 18S dataset also results in Polypodium being nested within Cnidaria. These results suggest that previous reports showing that Polypodium and Myxozoa form a sister group to Bilateria were an artifact of long-branch attraction. By including 28S rDNA sequences and a comprehensive sampling of cnidarian taxa, we demonstrate that previously conflicting hypotheses concerning the phylogenetic placement of Polypodium can be reconciled. Specifically, the data presented provide evidence that Polypodium is indeed a cnidarian and is either the sister taxon to Hydrozoa, or part of the hydrozoan clade, Leptothecata. The former hypothesis is consistent with the traditional view that Polypodium should be placed in its own cnidarian class, Polypodiozoa.

  13. An unusual branch of celiac trunk feeding suprarenal gland - a case report.

    PubMed

    Sarkar, Munmun; Mukherjee, Pranab; Roy, Hironmoy; Sengupta, Sandip Kumar; Sarkar, Amarendra Nath

    2014-04-01

    During routine dissection, variation in branching pattern of coeliac trunk has been observed in adult 54-year-old male cadaver. Instead of normal three branches an additional branch i.e., Left inferior phrenic artery originated from it as fourth branch. Then it divided into two branches, one directly supplied the diaphragm and other branch divided into three sub-branches. First and second branch entered into the left suprarenal gland at its upper and middle pole and third one finally terminated by supplying to the diaphragm. There is no separate middle suprarenal artery on the left side, but inferior suprarenal artery was as usual. No variations have been found on right side in the lateral branches of abdominal aorta. Such a quadrifurcation of celiac trunk to supply suprarenal gland is quiet unique so far searched in literature.

  14. A Feasibility Study of a New Unibody Branched Stent Graft Applied to Reconstruct the Canine Aortic Arch.

    PubMed

    Li, W; Zhai, S; Xu, K; Li, Q; Zhong, H; Li, T; Zhang, Z

    2018-06-01

    The aim was to evaluate the feasibility and safety of a new unibody branched stent graft for the reconstruction of the canine aortic arch. The unibody branched stent grafts included single branched stent grafts and double branched stent grafts. The main stent graft and branched limbs were sutured together. The branched stent grafts were folded into the introducer system, which consisted of a double channel catheter, a detachable sleeve, and an introducer sheath. The branched stent grafts were introduced and deployed into the aortic arch by the delivery system. Twenty adult mongrel dogs were used for the experiments. Ten dogs were implanted with single branched stent grafts; the other 10 were implanted with double branched stent grafts. The surviving animals were followed up for 3 months. Computed tomography angiography (CTA) was performed to observe the status of the branched stent grafts. All the unibody branched stent grafts were successfully implanted into the canine aortic arches. The technical success rate was 100%. There was no cerebral infarction, paraplegia or incision infection. CTA showed that all the branched stent grafts were patent; there was no endoleak or stent migration. The unibody branched stent graft system could be used to reconstruct the aortic arch. The animal experimental procedures demonstrated the safety and feasibility of the unibody branched stent graft system. Copyright © 2018 European Society for Vascular Surgery. Published by Elsevier B.V. All rights reserved.

  15. Early Experience with the Use of Inner Branches in Endovascular Repair of Complex Abdominal and Thoraco-abdominal Aortic Aneurysms.

    PubMed

    Katsargyris, Athanasios; Marques de Marino, Pablo; Mufty, Hozan; Pedro, Luis Mendes; Fernandes, Ruy; Verhoeven, Eric L G

    2018-05-01

    Visceral arteries in fenestrated and branched endovascular repair (F/BEVAR) have been addressed by fenestrations or directional side branches. Inner branches, as used in the arch branched device, could provide an extra option for visceral arteries "unsuitable" for fenestrations or directional side branches. Early experience with the use of inner branches for visceral arteries in F/BEVAR is described. All consecutive patients treated by F/BEVAR for complex abdominal aortic aneurysm (AAA) or thoraco-abdominal aneurysm (TAAA) using stent grafts with inner branches were included. Data were collected prospectively. Thirty-two patients (28 male, mean age 71.6 ± 8.3 years) were included. Seven (21.9%) patients had a complex AAA and 25 (78.1%) had a TAAA. A stent graft with inner branches only was used in four (12.5%) patients. The remaining 28 (87.5%) patients received a stent graft with fenestrations and inner branches. In total 52 vessels were targeted with inner branches. Technical success was achieved in all 32 (100%) patients. All 38 inner branch target vessels in grafts including fenestrations and inner branches were instantly catheterised (<1 minute), whereas catheterisation of target vessels in "inner branch only" grafts proved more difficult (<1 minute, n = 3; 1-3 min, n = 4; and >3 min, n = 7). The 30 day operative mortality was 3.1% (1/32). Estimated survival at 1 year was 80.0% ± 8.3%. During follow-up, four renal inner branches occluded in three patients. The estimated inner branch target vessel stent patency at 1 year was 91.9 ± 4.5%. The estimated freedom from re-intervention at 1 year was 78.4% ± 8.9%. Early data suggest that visceral inner branches might represent a feasible third option to address selected target vessels in F/BEVAR. Stent grafts with inner branch(es) in combination with fenestrations seem to be a better configuration than stent grafts with inner branches alone. Durability of the inner branch design needs further investigation. Copyright © 2018 European Society for Vascular Surgery. Published by Elsevier B.V. All rights reserved.

  16. Three ancient hormonal cues co-ordinate shoot branching in a moss

    PubMed Central

    Coudert, Yoan; Palubicki, Wojtek; Ljung, Karin; Novak, Ondrej; Leyser, Ottoline; Harrison, C Jill

    2015-01-01

    Shoot branching is a primary contributor to plant architecture, evolving independently in flowering plant sporophytes and moss gametophytes. Mechanistic understanding of branching is largely limited to flowering plants such as Arabidopsis, which have a recent evolutionary origin. We show that in gametophytic shoots of Physcomitrella, lateral branches arise by re-specification of epidermal cells into branch initials. A simple model co-ordinating the activity of leafy shoot tips can account for branching patterns, and three known and ancient hormonal regulators of sporophytic branching interact to generate the branching pattern- auxin, cytokinin and strigolactone. The mode of auxin transport required in branch patterning is a key divergence point from known sporophytic pathways. Although PIN-mediated basipetal auxin transport regulates branching patterns in flowering plants, this is not so in Physcomitrella, where bi-directional transport is required to generate realistic branching patterns. Experiments with callose synthesis inhibitors suggest plasmodesmal connectivity as a potential mechanism for transport. DOI: http://dx.doi.org/10.7554/eLife.06808.001 PMID:25806686

  17. Transient PVT measurements and model predictions for vessel heat transfer. Part II.

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

    Felver, Todd G.; Paradiso, Nicholas Joseph; Winters, William S., Jr.

    2010-07-01

    Part I of this report focused on the acquisition and presentation of transient PVT data sets that can be used to validate gas transfer models. Here in Part II we focus primarily on describing models and validating these models using the data sets. Our models are intended to describe the high speed transport of compressible gases in arbitrary arrangements of vessels, tubing, valving and flow branches. Our models fall into three categories: (1) network flow models in which flow paths are modeled as one-dimensional flow and vessels are modeled as single control volumes, (2) CFD (Computational Fluid Dynamics) models inmore » which flow in and between vessels is modeled in three dimensions and (3) coupled network/CFD models in which vessels are modeled using CFD and flows between vessels are modeled using a network flow code. In our work we utilized NETFLOW as our network flow code and FUEGO for our CFD code. Since network flow models lack three-dimensional resolution, correlations for heat transfer and tube frictional pressure drop are required to resolve important physics not being captured by the model. Here we describe how vessel heat transfer correlations were improved using the data and present direct model-data comparisons for all tests documented in Part I. Our results show that our network flow models have been substantially improved. The CFD modeling presented here describes the complex nature of vessel heat transfer and for the first time demonstrates that flow and heat transfer in vessels can be modeled directly without the need for correlations.« less

  18. Using the Git Software Tool on the Peregrine System | High-Performance

    Science.gov Websites

    branch workflow. Create a local branch called "experimental" based on the current master... git branch experimental Use your branch (start working on that experimental branch....) git checkout experimental git pull origin experimental # work, work, work, commit.... Send local branch to the repo git push

  19. Dependency of branch diameter growth in young Acer trees on light availability and shoot elongation.

    PubMed

    Sone, Kosei; Noguchi, Ko; Terashima, Ichiro

    2005-01-01

    Many biomechanical and theoretical studies have been based on the pipe-model theory, according to which a tree is regarded as an assemblage of pipes, each having the same amount of leaf area or leaf mass. However, the physiological mechanisms underlying the theory have not been extensively examined, particularly at the branch level. We analyzed how branches and trunks thickened in nine young Acer mono Maxim. var. marmoratum (Nichols) Hara f. dissectum (Wesmael) Rehder. and A. rufinerve (Siebold & Zucc.) trees. In particular, we examined the roles of light, allocation of photosynthates and shoot heterogeneity. The cross-sectional area (A) of a branch was proportional to cumulative leaf mass or leaf area of the branch, and cumulative cross-sectional area of the daughter branches (SigmaA) above a branching point was equal to the A of the mother branch. These results indicate the validity of the pipe-model theory. However, the theory was invalid for current-year growth of branch cross-sectional area (DeltaA). The DeltaA/SigmaDeltaA for a branching point was greatest (nearly equal to 1) at the crown surface, decreased with crown depth, and tended to increase again at the trunk base, and DeltaA strongly depended on light interception and the yearly increment of leaves on the branch. We examined factors that influenced DeltaA with multiple regression analysis. The ratio of DeltaA of a branch to branch leaf area depended on both relative irradiance and mean current-year shoot length of the branch, suggesting that diameter growth of a branch is determined by the balance between supply of photosynthates, which depends on light interception by the branch, and demand for photosynthates, which is created by the high cambial activity associated with vigorous shoot elongation.

  20. Association mapping in sunflower (Helianthus annuus L.) reveals independent control of apical vs. basal branching.

    PubMed

    Nambeesan, Savithri U; Mandel, Jennifer R; Bowers, John E; Marek, Laura F; Ebert, Daniel; Corbi, Jonathan; Rieseberg, Loren H; Knapp, Steven J; Burke, John M

    2015-03-11

    Shoot branching is an important determinant of plant architecture and influences various aspects of growth and development. Selection on branching has also played an important role in the domestication of crop plants, including sunflower (Helianthus annuus L.). Here, we describe an investigation of the genetic basis of variation in branching in sunflower via association mapping in a diverse collection of cultivated sunflower lines. Detailed phenotypic analyses revealed extensive variation in the extent and type of branching within the focal population. After correcting for population structure and kinship, association analyses were performed using a genome-wide collection of SNPs to identify genomic regions that influence a variety of branching-related traits. This work resulted in the identification of multiple previously unidentified genomic regions that contribute to variation in branching. Genomic regions that were associated with apical and mid-apical branching were generally distinct from those associated with basal and mid-basal branching. Homologs of known branching genes from other study systems (i.e., Arabidopsis, rice, pea, and petunia) were also identified from the draft assembly of the sunflower genome and their map positions were compared to those of associations identified herein. Numerous candidate branching genes were found to map in close proximity to significant branching associations. In sunflower, variation in branching is genetically complex and overall branching patterns (i.e., apical vs. basal) were found to be influenced by distinct genomic regions. Moreover, numerous candidate branching genes mapped in close proximity to significant branching associations. Although the sunflower genome exhibits localized islands of elevated linkage disequilibrium (LD), these non-random associations are known to decay rapidly elsewhere. The subset of candidate genes that co-localized with significant associations in regions of low LD represents the most promising target for future functional analyses.

  1. Branching habit and the allocation of reproductive resources in conifers

    PubMed Central

    Leslie, Andrew B.

    2012-01-01

    Background and Aims Correlated relationships between branch thickness, branch density, and twig and leaf size have been used extensively to study the evolution of plant canopy architecture, but fewer studies have explored the impact of these relationships on the allocation of reproductive resources. This study quantifies pollen cone production in conifers, which have similar basic reproductive biology but vary dramatically in branching habit, in order to test how differences in branch diameter influence pollen cone size and the density with which they are deployed in the canopy. Methods Measurements of canopy branch density, the number of cones per branch and cone size were used to estimate the amount of pollen cone tissues produced by 16 species in three major conifer clades. The number of pollen grains produced was also estimated using direct counts from individual pollen cones. Key Results The total amount of pollen cone tissues in the conifer canopy varied little among species and clades, although vegetative traits such as branch thickness, branch density and pollen cone size varied over several orders of magnitude. However, branching habit controls the way these tissues are deployed: taxa with small branches produce small pollen cones at a high density, while taxa with large branches produce large cones relatively sparsely. Conclusions Conifers appear to invest similar amounts of energy in pollen production independent of branching habit. However, similar associations between branch thickness, branch density and pollen cone size are seen across conifers, including members of living and extinct groups not directly studied here. This suggests that reproductive features relating to pollen cone size are in large part a function of the evolution of vegetative morphology and branching habit. PMID:22782240

  2. Resurrecting Legacy Code Using Ontosoft Knowledge-Sharing and Digital Object Management to Revitalize and Reproduce Software for Groundwater Management Research

    NASA Astrophysics Data System (ADS)

    Kwon, N.; Gentle, J.; Pierce, S. A.

    2015-12-01

    Software code developed for research is often used for a relatively short period of time before it is abandoned, lost, or becomes outdated. This unintentional abandonment of code is a valid problem in the 21st century scientific process, hindering widespread reusability and increasing the effort needed to develop research software. Potentially important assets, these legacy codes may be resurrected and documented digitally for long-term reuse, often with modest effort. Furthermore, the revived code may be openly accessible in a public repository for researchers to reuse or improve. For this study, the research team has begun to revive the codebase for Groundwater Decision Support System (GWDSS), originally developed for participatory decision making to aid urban planning and groundwater management, though it may serve multiple use cases beyond those originally envisioned. GWDSS was designed as a java-based wrapper with loosely federated commercial and open source components. If successfully revitalized, GWDSS will be useful for both practical applications as a teaching tool and case study for groundwater management, as well as informing theoretical research. Using the knowledge-sharing approaches documented by the NSF-funded Ontosoft project, digital documentation of GWDSS is underway, from conception to development, deployment, characterization, integration, composition, and dissemination through open source communities and geosciences modeling frameworks. Information assets, documentation, and examples are shared using open platforms for data sharing and assigned digital object identifiers. Two instances of GWDSS version 3.0 are being created: 1) a virtual machine instance for the original case study to serve as a live demonstration of the decision support tool, assuring the original version is usable, and 2) an open version of the codebase, executable installation files, and developer guide available via an open repository, assuring the source for the application is accessible with version control and potential for new branch developments. Finally, metadata about the software has been completed within the OntoSoft portal to provide descriptive curation, make GWDSS searchable, and complete documentation of the scientific software lifecycle.

  3. Numerical Investigation of Magnetically Driven Isentropic Compression of Solid Aluminum Cylinders with a Semi-Analytical Code

    NASA Astrophysics Data System (ADS)

    Largent, Billy T.

    The state of matter at extremely high pressures and densities is of fundamental interest to many branches of research, including planetary science, material science, condensed matter physics, and plasma physics. Matter with pressures, or energy densities, above 1 megabar (100 gigapascal) are defined as High Energy Density (HED) plasmas. They are directly relevant to the interiors of planets such as Earth and Jupiter and to the dense fuels in Inertial Confinement Fusion (ICF) experiments. To create HEDP conditions in laboratories, a sample may be compressed by a smoothly varying pressure ramp with minimal temperature increase, following the isentropic thermodynamic process. Isentropic compression of aluminum targets has been done using magnetic pressure produced by megaampere, pulsed power currents having 100 ns rise times. In this research project, magnetically driven, cylindrical isentropic compression has been numerically studied. In cylindrical geometry, material compression and pressure become higher than in planar geometry due to geometrical effects. Based on a semi-analytical model for the Magnetized Liner Inertial Fusion (MagLIF) concept, a code called "SA" was written to design cylindrical compression experiments on the 1.0 MA Zebra pulsed power generator at the Nevada Terawatt Facility (NTF). To test the physics models in the code, temporal progresses of rod compression and pressure were calculated with SA and compared with 1-D magnetohydrodynamic (MHD) codes. The MHD codes incorporated SESAME tables, for equation of state and resistivity, or the classical Spitzer model. A series of simulations were also run to find optimum rod diameters for 1.0 MA and 1.8 MA Zebra current pulses. For a 1.0 MA current peak and 95 ns rise time, a maximum compression of 2.35 ( 6.3 g/cm3) and a pressure of 900 GPa within a 100 mum radius were found for an initial diameter of 1.05 mm. For 1.8 MA peak simulations with the same rise time, the initial diameter of 1.3 mm was optimal with 3.32 ( 9.0 g/cm 3) compression.

  4. Xenobiology: State-of-the-Art, Ethics, and Philosophy of New-to-Nature Organisms.

    PubMed

    Schmidt, Markus; Pei, Lei; Budisa, Nediljko

    The basic chemical constitution of all living organisms in the context of carbon-based chemistry consists of a limited number of small molecules and polymers. Until the twenty-first century, biology was mainly an analytical science and has now reached a point where it merges with engineering science, paving the way for synthetic biology. One of the objectives of synthetic biology is to try to change the chemical compositions of living cells, that is, to create an artificial biological diversity, which in turn fosters a new sub-field of synthetic biology, xenobiology. In particular, the genetic code in living systems is based on highly standardized chemistry composed of the same "letters" or nucleotides as informational polymers (DNA, RNA) and the 20 amino acids which serve as basic building blocks for proteins. The universality of the genetic code enables not only vertical gene transfer within the same species but also horizontal gene transfer across biological taxa, which require a high degree of standardization and interconnectivity. Although some minor alterations of the standard genetic code are found in nature (e.g., proteins containing non-conical amino acids exist in nature, and some organisms use alternated coding systems), all structurally deep chemistry changes within living systems are generally lethal, making the creation of artificial biological system an extremely difficult challenge.In this context, one of the great challenges for bioscience is the development of a strategy for expanding the standard basic chemical repertoire of living cells. Attempts to alter the meaning of the genetic information stored in DNA as an informational polymer by changing the chemistry of the polymer (i.e., xeno-nucleic acids) or by changes in the genetic code have already yielded successful results. In the future this should enable the partial or full redirection of the biological information flow to generate "new" version(s) of the genetic code derived from the "old" biological world.In addition to the scientific challenges, the attempt to increase biochemical diversity also raises important ethical and philosophical issues. Although promotors of this branch of synthetic biology highlight the many potential applications to come (e.g., novel tools for diagnostics and fighting infection diseases), such developments could also bring risks affecting social, political, and other structures of nearly all societies.

  5. Yunnan-III models for evolutionary population synthesis

    NASA Astrophysics Data System (ADS)

    Zhang, F.; Li, L.; Han, Z.; Zhuang, Y.; Kang, X.

    2013-02-01

    We build the Yunnan-III evolutionary population synthesis (EPS) models by using the mesa stellar evolution code, BaSeL stellar spectra library and the initial mass functions (IMFs) of Kroupa and Salpeter, and present colours and integrated spectral energy distributions (ISEDs) of solar-metallicity stellar populations (SPs) in the range of 1 Myr to 15 Gyr. The main characteristic of the Yunnan-III EPS models is the usage of a set of self-consistent solar-metallicity stellar evolutionary tracks (the masses of stars are from 0.1 to 100 M⊙). This set of tracks is obtained by using the state-of-the-art mesa code. mesa code can evolve stellar models through thermally pulsing asymptotic giant branch (TP-AGB) phase for low- and intermediate-mass stars. By comparisons, we confirm that the inclusion of TP-AGB stars makes the V - K, V - J and V - R colours of SPs redder and the infrared flux larger at ages log(t/yr) ≳ 7.6 [the differences reach the maximum at log(t/yr) ˜ 8.6, ˜0.5-0.2 mag for colours, approximately two times for K-band flux]. We also find that the colour-evolution trends of Model with-TPAGB at intermediate and large ages are similar to those from the starburst99 code, which employs the Padova-AGB stellar library, BaSeL spectral library and the Kroupa IMF. At last, we compare the colours with the other EPS models comprising TP-AGB stars (such as CB07, M05, V10 and POPSTAR), and find that the B - V colour agrees with each other but the V-K colour shows a larger discrepancy among these EPS models [˜1 mag when 8 ≲ log(t/yr) ≲ 9]. The stellar evolutionary tracks, isochrones, colours and ISEDs can be obtained on request from the first author or from our website (http://www1.ynao.ac.cn/~zhangfh/). Using the isochrones, you can build your EPS models. Now the format of stellar evolutionary tracks is the same as that in the starburst99 code; you can put them into the starburst99 code and get the SP's results. Moreover, the colours involving other passbands or on other systems (e.g. HST F439W - F555W colour on AB system) can also be obtained on request.

  6. Intracranial distribution of the sympathetic system in mice: DiI tracing and immunocytochemical labeling

    NASA Technical Reports Server (NTRS)

    Maklad, A.; Quinn, T.; Fritzsch, B.

    2001-01-01

    The intracranial distribution of the cephalic branches of the superior cervical ganglion (scg) was studied in mice using indocarbocyanine dye (DiI) anterograde tracing. Two main branches were traced from the scg. The first branch joined the nerve of the pterygoid canal (the vidian nerve), npc, from which several intracranial sympathetic branches passed to the branches of the trigeminal nerve (tgn), abducent nerve (abn), trochlear nerve (trn), and oculomotor nerve (ocn). Most of the second branch joined the abn, from which sympathetic fibers dispersed in the distal region of the trigeminal ganglion (tgg) to form a plexus close to the ganglion's branches. Branches from this plexus joined the branches of the tgn, trn, and ocn. Several minor branches arising from the second branch of the scg were also observed. One formed a sympathetic plexus around the internal carotid artery (ica); a second formed a sympathetic plexus in the proximal region of tgg, close to its root; and a third branch coursed laterally to reach the ear by passing along the greater petrosal nerve (gpn). All of the intracranial trajectories traced from scg were found to be catecholaminergic, and likely sympathetic, using tyrosine hydroxylase (TH) immunocytochemistry.

  7. Morphometry of the coronary ostia and the structure of coronary arteries in the shorthair domestic cat

    PubMed Central

    Barszcz, Karolina; Kupczyńska, Marta; Klećkowska-Nawrot, Joanna; Janeczek, Maciej; Goździewska-Harłajczuk, Karolina; Dzierzęcka, Małgorzata; Janczyk, Paweł

    2017-01-01

    The aim of this study was to measure the area of the coronary ostia, assess their localization in the coronary sinuses and to determine the morphology of the stem of the left and right coronary arteries in the domestic shorthair cat. The study was conducted on 100 hearts of domestic shorthair cats of both sexes, aged 2–18 years, with an average body weight of 4.05 kg. A morphometric analysis of the coronary ostia was carried out on 52 hearts. The remaining 48 hearts were injected with a casting material in order to carry out a morphological assessment of the left and right coronary arteries. In all the studied animals, the surface of the left coronary artery ostium was larger than the surface of the right coronary artery ostium. There were four types of the left main coronary artery: type I (23 animals, 49%)–double-branched left main stem (giving off the left circumflex branch and the interventricular paraconal branch, which in turn gave off the septal branch), type II (12 animals, 26%)–double-branched left main stem (giving off the left circumflex branch and the interventricular paraconal branch without the septal branch), type III (11 animals, 23%)–triple-branched left main stem (giving off the left circumflex branch, interventricular branch and the septal branch, type IV (1 animal, 2%)–double-branched left main stem (giving off the interventricular paraconal branch and the left circumflex branch, which in turn gave off the septal branch). The left coronary artery ostium is greater than the right one. There is considerable diversity in the branches of proximal segment of the left coronary artery, while the right coronary artery is more conservative. These results can be useful in defining the optimal strategies in the endovascular procedures involving the coronary arteries or the aortic valve in the domestic shorthair cat. PMID:29020103

  8. Parotid Branches of the Auriculotemporal Nerve: An Anatomical Study With Implications for Frey Syndrome.

    PubMed

    Iwanaga, Joe; Fisahn, Christian; Watanabe, Koichi; Bobek, Samuel L; Ogata, Kinuko; Tanoue, Ryuichiro; Kusukawa, Jingo; Oskouian, Rod J; Tubbs, R Shane

    2017-01-01

    The auriculotemporal nerve is one of the many branches of the mandibular division of the trigeminal nerve. Of these, its superficial temporal branch has been most described. Although the parotid branches, secretomotor fibers to the parotid gland, are well known as the cause of Frey syndrome, there have been almost no descriptions of their anatomy. In this study, the authors dissected the parotid branches of the auriculotemporal nerve to elucidate their anatomy. A total of 10 sides from 7 adult and embalmed cadaver heads were used in this study. The specimens were derived from 3 males and 4 females, the age of cadavers at death ranged from 65 to 92 years old. Measurements included their diameter and the distance of their branching point from the main trunk of the auriculotemporal nerve from the middle of the tragus. Three of 10 sides had 2 parotid branches and 7 sides were found to have 1 parotid branch. The vertical distance between middle of the tragus to branching point of the parotid branch ranged from 1.79 to 16.17 mm. The horizontal distance between middle of the tragus to branching point of the parotid branch ranged from 3.03 to 12.62 mm. The diameter of the parotid branch ranged from 0.31 to 0.49 mm. An improved knowledge of the parotid branch of the auriculotemporal nerve might decrease injury to these structures with the potential for postoperative.

  9. Use of fish community data to evaluate restoration success of a riparian stream

    Treesearch

    Michael H. Paller; Marcel J.M. Reichert; John M. Dean; John C. Seigle

    2000-01-01

    From 1985 to 1988, stream and riparian habitats in Pen branch and Four Mile branch began recovering from deforestation caused by the previous release of hot water from nuclear reactors. The Pen branch corridor was replanted with wetland trees in 1995 to expedite recovery and restore the Pen branch ecosystem. Pen branch, Four Mile branch, and two relatively undisturbed...

  10. Why Do Phylogenomic Data Sets Yield Conflicting Trees? Data Type Influences the Avian Tree of Life more than Taxon Sampling.

    PubMed

    Reddy, Sushma; Kimball, Rebecca T; Pandey, Akanksha; Hosner, Peter A; Braun, Michael J; Hackett, Shannon J; Han, Kin-Lan; Harshman, John; Huddleston, Christopher J; Kingston, Sarah; Marks, Ben D; Miglia, Kathleen J; Moore, William S; Sheldon, Frederick H; Witt, Christopher C; Yuri, Tamaki; Braun, Edward L

    2017-09-01

    Phylogenomics, the use of large-scale data matrices in phylogenetic analyses, has been viewed as the ultimate solution to the problem of resolving difficult nodes in the tree of life. However, it has become clear that analyses of these large genomic data sets can also result in conflicting estimates of phylogeny. Here, we use the early divergences in Neoaves, the largest clade of extant birds, as a "model system" to understand the basis for incongruence among phylogenomic trees. We were motivated by the observation that trees from two recent avian phylogenomic studies exhibit conflicts. Those studies used different strategies: 1) collecting many characters [$\\sim$ 42 mega base pairs (Mbp) of sequence data] from 48 birds, sometimes including only one taxon for each major clade; and 2) collecting fewer characters ($\\sim$ 0.4 Mbp) from 198 birds, selected to subdivide long branches. However, the studies also used different data types: the taxon-poor data matrix comprised 68% non-coding sequences whereas coding exons dominated the taxon-rich data matrix. This difference raises the question of whether the primary reason for incongruence is the number of sites, the number of taxa, or the data type. To test among these alternative hypotheses we assembled a novel, large-scale data matrix comprising 90% non-coding sequences from 235 bird species. Although increased taxon sampling appeared to have a positive impact on phylogenetic analyses the most important variable was data type. Indeed, by analyzing different subsets of the taxa in our data matrix we found that increased taxon sampling actually resulted in increased congruence with the tree from the previous taxon-poor study (which had a majority of non-coding data) instead of the taxon-rich study (which largely used coding data). We suggest that the observed differences in the estimates of topology for these studies reflect data-type effects due to violations of the models used in phylogenetic analyses, some of which may be difficult to detect. If incongruence among trees estimated using phylogenomic methods largely reflects problems with model fit developing more "biologically-realistic" models is likely to be critical for efforts to reconstruct the tree of life. [Birds; coding exons; GTR model; model fit; Neoaves; non-coding DNA; phylogenomics; taxon sampling.]. © The Author(s) 2017. Published by Oxford University Press, on behalf of the Society of Systematic Biologists. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

  11. An Anatomical Assessment of Branch Abscission and Branch-base Hydraulic Architecture in the Endangered Wollemia nobilis

    PubMed Central

    Burrows, G. E.; Meagher, P. F.; Heady, R. D.

    2007-01-01

    Background and Aims The branch-base xylem structure of the endangered Wollemia nobilis was anatomically investigated. Wollemia nobilis is probably the only extant tree species that produces only first-order branches and where all branches are cleanly abscised. An investigation was carried out to see if these unusual features might influence branch-base xylem structure and water supply to the foliage. Methods The xylem was sectioned at various distances along the branch bases of 6-year-old saplings. Huber values and relative theoretical hydraulic conductivities were calculated for various regions of the branch base. Key Results The most proximal branch base featured a pronounced xylem constriction. The constriction had only 14–31 % (average 21 %) of the cross-sectional area and 20–42 % (average 28 %) of the theoretical hydraulic conductivity of the more distal branch xylem. Wollemia nobilis had extremely low Huber values for a conifer. Conclusions The branch-base xylem constriction would appear to facilitate branch abscission, while the associated Huber values show that W. nobilis supplies a relatively large leaf area through a relatively small diameter ‘pipe’. It is tempting to suggest that the pronounced decline of W. nobilis in the Tertiary is related to its unusual branch-base structure but physiological studies of whole plant conductance are still needed. PMID:17272303

  12. Common Envelope Light Curves. I. Grid-code Module Calibration

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

    Galaviz, Pablo; Marco, Orsola De; Staff, Jan E.

    The common envelope (CE) binary interaction occurs when a star transfers mass onto a companion that cannot fully accrete it. The interaction can lead to a merger of the two objects or to a close binary. The CE interaction is the gateway of all evolved compact binaries, all stellar mergers, and likely many of the stellar transients witnessed to date. CE simulations are needed to understand this interaction and to interpret stars and binaries thought to be the byproduct of this stage. At this time, simulations are unable to reproduce the few observational data available and several ideas have been putmore » forward to address their shortcomings. The need for more definitive simulation validation is pressing and is already being fulfilled by observations from time-domain surveys. In this article, we present an initial method and its implementation for post-processing grid-based CE simulations to produce the light curve so as to compare simulations with upcoming observations. Here we implemented a zeroth order method to calculate the light emitted from CE hydrodynamic simulations carried out with the 3D hydrodynamic code Enzo used in unigrid mode. The code implements an approach for the computation of luminosity in both optically thick and optically thin regimes and is tested using the first 135 days of the CE simulation of Passy et al., where a 0.8  M {sub ⊙} red giant branch star interacts with a 0.6  M {sub ⊙} companion. This code is used to highlight two large obstacles that need to be overcome before realistic light curves can be calculated. We explain the nature of these problems and the attempted solutions and approximations in full detail to enable the next step to be identified and implemented. We also discuss our simulation in relation to recent data of transients identified as CE interactions.« less

  13. Using game theory for perceptual tuned rate control algorithm in video coding

    NASA Astrophysics Data System (ADS)

    Luo, Jiancong; Ahmad, Ishfaq

    2005-03-01

    This paper proposes a game theoretical rate control technique for video compression. Using a cooperative gaming approach, which has been utilized in several branches of natural and social sciences because of its enormous potential for solving constrained optimization problems, we propose a dual-level scheme to optimize the perceptual quality while guaranteeing "fairness" in bit allocation among macroblocks. At the frame level, the algorithm allocates target bits to frames based on their coding complexity. At the macroblock level, the algorithm distributes bits to macroblocks by defining a bargaining game. Macroblocks play cooperatively to compete for shares of resources (bits) to optimize their quantization scales while considering the Human Visual System"s perceptual property. Since the whole frame is an entity perceived by viewers, macroblocks compete cooperatively under a global objective of achieving the best quality with the given bit constraint. The major advantage of the proposed approach is that the cooperative game leads to an optimal and fair bit allocation strategy based on the Nash Bargaining Solution. Another advantage is that it allows multi-objective optimization with multiple decision makers (macroblocks). The simulation results testify the algorithm"s ability to achieve accurate bit rate with good perceptual quality, and to maintain a stable buffer level.

  14. Investigation of the n  =  1 resistive wall modes in the ITER high-mode confinement

    NASA Astrophysics Data System (ADS)

    Zheng, L. J.; Kotschenreuther, M. T.; Valanju, P.

    2017-06-01

    The n  =  1 resistive wall mode (RWM) stability of ITER high-mode confinement is investigated with bootstrap current included for equilibrium, together with the rotation and diamagnetic drift effects for stability. Here, n is the toroidal mode number. We use the CORSICA code for computing the free boundary equilibrium and AEGIS code for stability. We find that the inclusion of bootstrap current for equilibrium is critical. It can reduce the local magnetic shear in the pedestal, so that the infernal mode branches can develop. Consequently, the n  =  1 modes become unstable without a stabilizing wall at a considerably lower beta limit, driven by the steep pressure gradient in the pedestal. Typical values of the wall position stabilize the ideal mode, but give rise to the ‘pedestal’ resistive wall modes. We find that the rotation can contribute a stabilizing effect on RWMs and the diamagnetic drift effects can further improve the stability in the co-current rotation case. But, generally speaking, the rotation stabilization effects are not as effective as the case without including the bootstrap current effects on equilibrium. We also find that the diamagnetic drift effects are actually destabilizing when there is a counter-current rotation.

  15. Bitstream decoding processor for fast entropy decoding of variable length coding-based multiformat videos

    NASA Astrophysics Data System (ADS)

    Jo, Hyunho; Sim, Donggyu

    2014-06-01

    We present a bitstream decoding processor for entropy decoding of variable length coding-based multiformat videos. Since most of the computational complexity of entropy decoders comes from bitstream accesses and table look-up process, the developed bitstream processing unit (BsPU) has several designated instructions to access bitstreams and to minimize branch operations in the table look-up process. In addition, the instruction for bitstream access has the capability to remove emulation prevention bytes (EPBs) of H.264/AVC without initial delay, repeated memory accesses, and additional buffer. Experimental results show that the proposed method for EPB removal achieves a speed-up of 1.23 times compared to the conventional EPB removal method. In addition, the BsPU achieves speed-ups of 5.6 and 3.5 times in entropy decoding of H.264/AVC and MPEG-4 Visual bitstreams, respectively, compared to an existing processor without designated instructions and a new table mapping algorithm. The BsPU is implemented on a Xilinx Virtex5 LX330 field-programmable gate array. The MPEG-4 Visual (ASP, Level 5) and H.264/AVC (Main Profile, Level 4) are processed using the developed BsPU with a core clock speed of under 250 MHz in real time.

  16. Measurements and computational analysis of heat transfer and flow in a simulated turbine blade internal cooling passage

    NASA Technical Reports Server (NTRS)

    Russell, Louis M.; Thurman, Douglas R.; Simonyi, Patricia S.; Hippensteele, Steven A.; Poinsatte, Philip E.

    1993-01-01

    Visual and quantitative information was obtained on heat transfer and flow in a branched-duct test section that had several significant features of an internal cooling passage of a turbine blade. The objective of this study was to generate a set of experimental data that could be used to validate computer codes for internal cooling systems. Surface heat transfer coefficients and entrance flow conditions were measured at entrance Reynolds numbers of 45,000, 335,000, and 726,000. The heat transfer data were obtained using an Inconel heater sheet attached to the surface and coated with liquid crystals. Visual and quantitative flow field results using particle image velocimetry were also obtained for a plane at mid channel height for a Reynolds number of 45,000. The flow was seeded with polystyrene particles and illuminated by a laser light sheet. Computational results were determined for the same configurations and at matching Reynolds numbers; these surface heat transfer coefficients and flow velocities were computed with a commercially available code. The experimental and computational results were compared. Although some general trends did agree, there were inconsistencies in the temperature patterns as well as in the numerical results. These inconsistencies strongly suggest the need for further computational studies on complicated geometries such as the one studied.

  17. Branch length mediates flower production and inflorescence architecture of Fouquieria splendens (ocotillo)

    USGS Publications Warehouse

    Bowers, Janice E.

    2006-01-01

    The capacity of individual branches to store water and fix carbon can have profound effects on inflorescence size and architecture, thus on floral display, pollination, and fecundity. Mixed regression was used to investigate the relation between branch length, a proxy for plant resources, and floral display of Fouquieria splendens (ocotillo), a woody, candelabraform shrub of wide distribution in arid North America. Long branches produced three times as many flowers as short branches, regardless of overall plant size. Long branches also had more complex panicles with more cymes and cyme types than short branches; thus, branch length also influenced inflorescence architecture. Within panicles, increasing the number of cymes by one unit added about two flowers, whereas increasing the number of cyme types by one unit added about 21 flowers. Because flower production is mediated by branch length, and because most plants have branches of various lengths, the floral display of individual plants necessarily encompasses a wide range of inflorescence size and structure. ?? Springer 2006.

  18. Image2000: A Free, Innovative, Java Based Imaging Package

    NASA Technical Reports Server (NTRS)

    Pell, Nicholas; Wheeler, Phil; Cornwell, Carl; Matusow, David; Obenschain, Arthur F. (Technical Monitor)

    2001-01-01

    The National Aeronautics and Space Administration (NASA) Goddard Space Flight Center's (GSFC) Scientific and Educational Endeavors (SEE) and the Center for Image Processing in Education (CIPE) use satellite image processing as part of their science lessons developed for students and educators. The image processing products that they use, as part of these lessons, no longer fulfill the needs of SEE and CIPE because these products are either dependent on a particular computing platform, hard to customize and extend, or do not have enough functionality. SEE and CIPE began looking for what they considered the "perfect" image processing tool that was platform independent, rich in functionality and could easily be extended and customized for their purposes. At the request of SEE, NASA's GSFC, code 588 the Advanced Architectures and Automation Branch developed a powerful new Java based image processing endeavors.

  19. NASA/Army Rotorcraft Transmission Research, a Review of Recent Significant Accomplishments

    NASA Technical Reports Server (NTRS)

    Krantz, Timothy L.

    1994-01-01

    A joint helicopter transmission research program between NASA Lewis Research Center and the U.S. Army Research Lab has existed since 1970. Research goals are to reduce weight and noise while increasing life, reliability, and safety. These research goals are achieved by the NASA/Army Mechanical Systems Technology Branch through both in-house research and cooperative research projects with university and industry partners. Some recent significant technical accomplishments produced by this cooperative research are reviewed. The following research projects are reviewed: oil-off survivability of tapered roller bearings, design and evaluation of high contact ratio gearing, finite element analysis of spiral bevel gears, computer numerical control grinding of spiral bevel gears, gear dynamics code validation, computer program for life and reliability of helicopter transmissions, planetary gear train efficiency study, and the Advanced Rotorcraft Transmission (ART) program.

  20. Stable Eigenmodes and Energy Dynamics in a Model of LAPD Turbulence

    NASA Astrophysics Data System (ADS)

    Friedman, Brett; Carter, T. A.; Umansky, M. V.

    2011-10-01

    A three field Braginskii fluid model that semi-quantitatively predicts turbulent statistics in the Large Plasma Device (LAPD) at UCLA is analyzed. A 3D simulation of turbulence in LAPD using the BOUT++ fluid code is shown to reproduce experimental turbulent properties such as the frequency spectrum and correlation length with semi-qualitative and semi-quantitative accuracy. In an attempt to explain turbulent saturation in the simulation, equations for the energy dynamics are derived and applied to the results. The degree to which stable linear drift wave eigenmodes draw energy from the system and the affect that zonal flows have on transferring energy to stable eigenmode branches is explored. It is also shown that zonal flows drive Kelvin-Helmholtz flute modes, which come to dominate the energy dynamics in the quasi steady state regime.

  1. Boost-phase discrimination research

    NASA Technical Reports Server (NTRS)

    Langhoff, Stephen R.; Feiereisen, William J.

    1993-01-01

    The final report describes the combined work of the Computational Chemistry and Aerothermodynamics branches within the Thermosciences Division at NASA Ames Research Center directed at understanding the signatures of shock-heated air. Considerable progress was made in determining accurate transition probabilities for the important band systems of NO that account for much of the emission in the ultraviolet region. Research carried out under this project showed that in order to reproduce the observed radiation from the bow shock region of missiles in their boost phase it is necessary to include the Burnett terms in the constituent equation, account for the non-Boltzmann energy distribution, correctly model the NO formation and rotational excitation process, and use accurate transition probabilities for the NO band systems. This work resulted in significant improvements in the computer code NEQAIR that models both the radiation and fluid dynamics in the shock region.

  2. The sensory-motor bridge neurorraphy: an anatomic study of feasibility between sensory branch of the musculocutaneous nerve and deep branch of the radial nerve.

    PubMed

    Goubier, Jean-Noel; Teboul, Frédéric

    2011-05-01

    Restoring elbow flexion remains the first step in the management of total palsy of the brachial plexus. Non avulsed upper roots may be grafted on the musculocutaneous nerve. When this nerve is entirely grafted, some motor fibres regenerate within the sensory fibres quota. Aiming potential utilization of these lost motor fibres, we attempted suturing the sensory branch of the musculocutaneous nerve onto the deep branch of the radial nerve. The objective of our study was to assess the anatomic feasibility of such direct suturing of the terminal sensory branch of the musculocutaneous nerve onto the deep branch of the radial nerve. The study was carried out with 10 upper limbs from fresh cadavers. The sensory branch of the musculocutaneous muscle was dissected right to its division. The motor branch of the radial nerve was identified and dissected as proximally as possible into the radial nerve. Then, the distance separating the two nerves was measured so as to assess whether direct neurorraphy of the two branches was feasible. The excessive distance between the two branches averaged 6 mm (1-13 mm). Thus, direct neurorraphy of the sensory branch of the musculocutaneous nerve and the deep branch of the radial nerve was possible. When the whole musculocutaneous nerve is grafted, some of its motor fibres are lost amongst the sensory fibres (cutaneous lateral antebrachial nerve). By suturing this sensory branch onto the deep branch of the radial nerve, "lost" fibres may be retrieved, resulting in restoration of digital extension. Copyright © 2011 Wiley-Liss, Inc.

  3. 39 CFR 241.2 - Stations and branches.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... number, letter or name. As a general rule, branches are named. (2) Stations and branches transact... 39 Postal Service 1 2012-07-01 2012-07-01 false Stations and branches. 241.2 Section 241.2 Postal... DISCONTINUANCE § 241.2 Stations and branches. (a) Description. (1) Stations are established within the corporate...

  4. 39 CFR 241.2 - Stations and branches.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... number, letter or name. As a general rule, branches are named. (2) Stations and branches transact... 39 Postal Service 1 2013-07-01 2013-07-01 false Stations and branches. 241.2 Section 241.2 Postal... DISCONTINUANCE § 241.2 Stations and branches. (a) Description. (1) Stations are established within the corporate...

  5. 39 CFR 241.2 - Stations and branches.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... number, letter or name. As a general rule, branches are named. (2) Stations and branches transact... 39 Postal Service 1 2014-07-01 2014-07-01 false Stations and branches. 241.2 Section 241.2 Postal... DISCONTINUANCE § 241.2 Stations and branches. (a) Description. (1) Stations are established within the corporate...

  6. 39 CFR 241.2 - Stations and branches.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... number, letter or name. As a general rule, branches are named. (2) Stations and branches transact... 39 Postal Service 1 2011-07-01 2011-07-01 false Stations and branches. 241.2 Section 241.2 Postal... DISCONTINUANCE § 241.2 Stations and branches. (a) Description. (1) Stations are established within the corporate...

  7. 39 CFR 241.2 - Stations and branches.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... number, letter or name. As a general rule, branches are named. (2) Stations and branches transact... 39 Postal Service 1 2010-07-01 2010-07-01 false Stations and branches. 241.2 Section 241.2 Postal... DISCONTINUANCE § 241.2 Stations and branches. (a) Description. (1) Stations are established within the corporate...

  8. Coaxial stub tuner

    NASA Technical Reports Server (NTRS)

    Chern, Shy-Shiun (Inventor)

    1981-01-01

    A coaxial stub tuner assembly is comprised of a short circuit branch diametrically opposite an open circuit branch. The stub of the short circuit branch is tubular, and the stub of the open circuit branch is a rod which extends through the tubular stub into the open circuit branch. The rod is threaded at least at its outer end, and the tubular stub is internally threaded to receive the threads of the rod. The open circuit branch can be easily tuned by turning the threaded rod in the tubular stub to adjust the length of the rod extending into the open circuit branch.

  9. Combining living anionic polymerization with branching reactions in an iterative fashion to design branched polymers.

    PubMed

    Higashihara, Tomoya; Sugiyama, Kenji; Yoo, Hee-Soo; Hayashi, Mayumi; Hirao, Akira

    2010-06-16

    This paper reviews the precise synthesis of many-armed and multi-compositional star-branched polymers, exact graft (co)polymers, and structurally well-defined dendrimer-like star-branched polymers, which are synthetically difficult, by a commonly-featured iterative methodology combining living anionic polymerization with branched reactions to design branched polymers. The methodology basically involves only two synthetic steps; (a) preparation of a polymeric building block corresponding to each branched polymer and (b) connection of the resulting building unit to another unit. The synthetic steps were repeated in a stepwise fashion several times to successively synthesize a series of well-defined target branched polymers. Copyright © 2010 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  10. Variations in the branching pattern of posterior division of mandibular nerve: a case report.

    PubMed

    Muraleedharan, Aparna; Veeramani, Raveendranath; Chand, Parkash

    2014-11-01

    Abnormal communications among the branches of mandibular nerve especially the posterior division are significant due to various procedures undertaken in this region. These variations are worth reporting as they pose serious implications in several interventions in this region, and may even lead to false diagnosis. During routine dissection, the mandibular nerve and its branches were dissected in the infratemporal fossa. The branches from the posterior division of the mandibular nerve namely the inferior alveolar and auriculotemporal nerves were carefully dissected, and their abnormal branching pattern was noted. There was a communicating branch between left inferior alveolar and auriculotemporal nerve. There was also a variant recurrent branch from the left inferior alveolar nerve that supplied the lateral pterygoid muscle. Such variant branches and communications between the branches of mandibular nerve as seen in this case have an embryological basis and are clinically important in this region especially for dental surgeries and anesthesia.

  11. Crown development in a pioneer tree, Rhus trichocarpa, in relation to the structure and growth of individual branches.

    PubMed

    Osada, Noriyuki

    2006-01-01

    Based on an allometric reconstruction, the structure and biomass-allocation patterns of branches and current-year shoots were investigated in branches of various heights in the pioneer tree Rhus trichocarpa, to evaluate how crown development is achieved and limited in association with height. Path analysis was conducted to explore the effects of light availability, basal height and size of individual branches on branch structure and growth. Branch angle was affected by basal height, whereas branch mass was influenced primarily by light availability. This result suggests that branch structure is strongly constrained by basal height, and that trees mediate such constraints under different light environments. Previous-year leaf area and light availability showed positive effects on current-year stem mass. In contrast, branch basal height and mass negatively affected current-year stem mass. Moreover, the length of stems of a given diameter decreased with increasing branch height. Therefore the cost of biomass investment for a unit growth in length is greater for branches of larger size and at upper positions. Vertical growth rate in length decreased with increasing height. Height-dependent changes in stem allometry and angle influenced the reduction in vertical growth rate to a similar degree.

  12. Biomimetic Branched Hollow Fibers Templated by Self-assembled Fibrous Polyvinylpyrrolidone (PVP) Structures in Aqueous Solution

    PubMed Central

    Qiu, Penghe; Mao, Chuanbin

    2010-01-01

    Branched hollow fibers are common in nature, but to form artificial fibers with a similar branched hollow structure is still a challenge. We discovered that polyvinylpyrrolidone (PVP) could self-assemble into branched hollow fibers in an aqueous solution after aging the PVP solution for about two weeks. Based on this finding, we demonstrated two approaches by which the self-assembly of PVP into branched hollow fibers could be exploited to template the formation of branched hollow inorganic fibers. First, inorganic material such as silica with high affinity against the PVP could be deposited on the surface of the branched hollow PVP fibers to form branched hollow silica fibers. To extend the application of PVP self-assembly in templating the formation of hollow branched fibers, we then adopted a second approach where the PVP molecules bound to inorganic nanoparticles (using gold nanoparticles as a model) co-self-assemble with the free PVP molecules in an aqueous solution, resulting in the formation of the branched hollow fibers with the nanoparticles embedded in the PVP matrix constituting the walls of the fibers. Heating the resultant fibers above the glass transition temperature of PVP led to the formation of branched hollow gold fibers. Our work suggests that the self-assembly of the PVP molecules in the solution can serve as a general method for directing the formation of branched hollow inorganic fibers. The branched hollow fibers may find potential applications in microfluidics, artificial blood vessel generation, and tissue engineering. PMID:20158250

  13. Anatomy of psoas muscle innervation: Cadaveric study.

    PubMed

    Mahan, Mark A; Sanders, Luke E; Guan, Jian; Dailey, Andrew T; Taylor, William; Morton, David A

    2017-05-01

    Hip flexion weakness is relatively common after lateral transpsoas surgery. Persistent weakness may result from injury to the innervation of the psoas major muscles (PMMs); however, anatomical texts have conflicting descriptions of this innervation, and the branching pattern of the nerves within the psoas major, particularly relative to vertebral anatomy, has not been described. The authors dissected human cadavers to describe the branching pattern of nerves supplying the PMMs. Sixteen embalmed cadavers were dissected, and the fine branching pattern of the innervation to the PMM was studied in 24 specimens. The number of branches and width and length of each branch of nerves to the PMMs were quantified. Nerve branches innervating the PMMs arose from spinal nerve levels L1-L4, with an average of 6.3 ± 1.1 branches per muscle. The L1 nerve branch was the least consistently present, whereas L2 and L3 branches were the most robust, the most numerous, and always present. The nerve branches to the psoas major commonly crossed the intervertebral (IV) disc obliquely prior to ramification within the muscle; 76%, 80%, and 40% of specimens had a branch to the PMM cross the midportion of the L2-3, L3-4, and L4-5 IV discs, respectively. The PMMs are segmentally innervated from the L2-L4 ventral rami branches, where these branches course obliquely across the L2-3, L3-4, and L4-5 IV discs. Knowledge of the mapping of nerve branches to the PMMs may reduce injury and the incidence of persistent weak hip flexion during lateral transpsoas surgery. Clin. Anat. 30:479-486, 2017. © 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

  14. [Applied anatomy of small saphenous vein and its distally-based sural nerve nutrient].

    PubMed

    Zhang, Fahui; Lin, Songqing; Zheng, Heping

    2005-07-01

    To investigate the origin of small saphenous vein of distally-based of sural nerve nutrient vessels flap and its clinical application. The origins of nutrient vessels of small saphenous vein and communicating branches of superficial-deep vein were observed on specimens of 30 adult cadaveric low limbs by perfusing red gelatin to dissect the artery. The nutrient vessels of small saphenous vein originated from the heel lateral artery, the terminal perforator branches of peroneal artery and intermuscular septum perforating branches of peroneal artery. There were 2 to 5 branches of such distally-based perforating branches whose diameters ranged from 0.6 to 1.0 mm. Those perforating branches included fascia branches, cutaneous branches nerve and vein nutrient branches. Those nutrient vessels formed a longitudinal vessel chain of clinical nerve shaft, vessel chain of vein side and vessel network of deep superficial fascia. The small saphenous vein had 1 to 2 communicating branches of superficial-deep vein whose diameter was 1.7+/-0.5 mm, 3.4+/-0.9 cm to the level of cusp of lateral malleolus, and converged into the fibular vein. Distally-based sural nerve, small saphenous vein, and nutrient vessels of fascia skin have the same region. The communicating branches of superficial-deep vein is 3 to 4 cm to the level of cusp lateral malleolus. These communicating branches could improve the venous drainage of the flap.

  15. Operational Environmental Assessment

    DTIC Science & Technology

    1988-09-01

    Chemistry Branch - Physical Chemistry Branch " Analytical Research Division - Analytical Systems Branch - Methodology Research Branch - Spectroscopy Branch...electromagnetic frequency spec- trum and includes radio frequencies, infrared , visible light, ultraviolet, X-rays and gamma rays (in ascending order of...Verruculogen Aflatrem Picrotoxin Ciguatoxin Mycotoxins Simple Tr ichothecenes T-2 Toxin T-2 Tetraol Neosolaniol * Nivalenol Deoxynivalenol Verrucarol B-3 B lank

  16. Inferior alveolar nerve canal and branches detected with dental cone beam computed tomography in lower third molar region.

    PubMed

    Yamada, Takahisa; Ishihama, Kohji; Yasuda, Kouichi; Hasumi-Nakayama, Yoko; Ito, Kana; Yamaoka, Minoru; Furusawa, Kiyofumi

    2011-05-01

    To evaluate the course of the inferior alveolar nerve and its branches, the detectable branches were investigated with dental cone beam computed tomography (CBCT). Patients in whom the lower third molar (M3) and inferior alveolar nerve canal showed overlapping in the initial panoramic image were included. One hundred twelve impacted lower M3s were extracted after examination with dental CBCT. The detection ratio, the course of the branches, and their relation with the M3 were retrospectively investigated. One hundred fifty-five branches were observed in 106 cases (94.6%, 106/112) around the M3. Most branches coursed under the M3 (55.5%, 86/155), and 85 branches (54.8%, 85/155) were in contact with the M3. The inferior alveolar nerve canal and branch(es) were mostly in contact with the M3 (57.5%, 61/106). Dental CBCT can detect most tubular structures representing branches in the impacted lower M3 region. Copyright © 2011 American Association of Oral and Maxillofacial Surgeons. Published by Elsevier Inc. All rights reserved.

  17. Influence of biopolymers on the solubility of branched-chain amino acids and stability of their solutions.

    PubMed

    Hong, Chi Rac; Lee, Gyu Whan; Paik, Hyun-Dong; Chang, Pahn-Shick; Choi, Seung Jun

    2018-01-15

    This study confirmed the possibility of biopolymer-type stabilizers to increase the saturation concentration of branched-chain amino acids by preventing their crystallization/precipitation. Although microfluidization increased the initial solubility, it failed to increase the saturation concentration of the branched-chain amino acids. The saturation concentration of the branched-chain amino acids increased from 3.81% to 4.42% and 4.85% after the incorporation of food hydrocolloids and proteins, respectively. However, the branched-chain amino acids:stabilizer ratio did not affect the solubility. In the case of food hydrocolloid-based solutions, crystal formation and growth of branched-chain amino acids occurred during storage, resulting in the precipitation of branched-chain amino acid crystals. However, food proteins effectively increased the stability of the solubilized branched-chain amino acids. The improved solubility and stability of the solubilized branched-chain amino acids could be attributed to interactions between the functional groups (carboxyl, amine, sulfate, aliphatic, aromatic, etc.) of the stabilizer and the branched-chain amino acid molecules. Copyright © 2017 Elsevier Ltd. All rights reserved.

  18. On extreme events for non-spatial and spatial branching Brownian motions

    NASA Astrophysics Data System (ADS)

    Avan, Jean; Grosjean, Nicolas; Huillet, Thierry

    2015-04-01

    We study the impact of having a non-spatial branching mechanism with infinite variance on some parameters (height, width and first hitting time) of an underlying Bienaymé-Galton-Watson branching process. Aiming at providing a comparative study of the spread of an epidemics whose dynamics is given by the modulus of a branching Brownian motion (BBM) we then consider spatial branching processes in dimension d, not necessarily integer. The underlying branching mechanism is either a binary branching model or one presenting infinite variance. In particular we evaluate the chance p(x) of being hit if the epidemics started away at distance x. We compute the large x tail probabilities of this event, both when the branching mechanism is regular and when it exhibits very large fluctuations.

  19. Structural development of redwood branches and its effects on wood growth.

    PubMed

    Kramer, Russell D; Sillett, Stephen C; Carroll, Allyson L

    2014-03-01

    Redwood branches provide all the carbohydrates for the most carbon-heavy forests on Earth, and recent whole-tree measurements have quantified trunk growth rates associated with complete branch inventories. Providing all of a tree's photosynthetic capacity, branches represent an increasing proportion of total aboveground wood production as trees enlarge. To examine branch development and its effects on wood volume growth, we dissected 31 branches from eight Sequoia sempervirens (D. Don) Endl. and seven Sequoiadendron giganteum Lindl. trees. The cambium-area-to-leaf-area ratio was maintained with size and age but increased with light availability, whereas the heartwood-deposition-area-to-leaf-area ratio increased with size and age but was insensitive to light availability. The proportion of foliage mass arrayed in <1-cm-diameter epicormic shoots increased with decreasing light and was higher in Sequoia (20-60%) than in Sequoiadendron (3-16%). Well-illuminated branches concentrated leaves higher and distally, while shaded branches distributed leaves lower and proximally. In similar light environments, older branches distributed leaves lower and more proximally than younger branches. Branch size, light, species, heartwood area, a heartwood-area-species interaction, and ovulate cone mass predicted 87.5% of the variability in wood volume growth of branches. After accounting for the positive effects of size and light, wood volume growth declined with heartwood area and age. The effect of age was trivial compared to the effect of heartwood area, suggesting that heartwood expansion caused the age-related decline in wood volume growth. Additionally, Sequoiadendron branches of similar size and light environment with more ovulate cones produced less wood, even though these cones were long-lived and photosynthetic, reflecting the energetic cost of seed production. These results contributed to a conceptual model of branch development in which light availability, injury, heartwood content, gravity, and time interact to produce the high degree of branch structural variation evident within redwood crowns.

  20. Inflation in a web

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

    Li Sheng; Piao Yunsong; Liu Yang

    2009-12-15

    In a given path with multiple branches, in principle, it can be expected that there are some fork points, where one branch is bifurcated into different branches, or various branches converge into one or several branches. In this paper, it is shown that if there is a web formed by such branches in a given field space, in which each branch can be responsible for a period of slow roll inflation, a multiverse separated by a domain wall network will come into being, some of which might correspond to our observable universe. We discuss this scenario and show possible observationsmore » of a given observer at late time.« less

  1. Cravity modulation of the moss Tortula modica branching

    NASA Astrophysics Data System (ADS)

    Khorkavtsiv, Yaroslava; Kit, Nadja

    Among various abiotic factors the sensor system of plants constantly perceives light and gravitation impulses and reacts on their action by photo- and gravitropisms. Tropisms play fundamental part in ontogenesis and determination of plant forms. Essentially important question is how light initiating phototropic bending modulates gravitropism. In contrast to flower plants, red light is phototropically active for mosses, and phytochromic system controls initiation of apical growth, branching and photomorphogenesis of mosses. The aim of this investigation was to analyse cell branching of protonemata Tortula modica Zander depending on the direction of light and gravitation vector. The influence of light and gravitation on the form of protonemal turf T. modica, branching and the angle of lateral branches relative to axis of mother cell growth has been investigated. As moss protonemata is not branched in the darkness, light is necessary for branching activation. Minimally low intensity of the red light (0.2 mmol (.) m (-2) ({) .}sec (-1) ) induced branching without visual display of phototropic growth. It has been established that unidirectional action of light and gravitation intensifies branching, and, on the contrary, perpendicularly oriented vectors of factors weaken branches formation. Besides, parallel oriented vectors initiated branching from both cell sides, but oppositely directed vectors initiated branching only from one side. Clinostate rotation the change of the vector gravity and causes uniform cell branching, hence, light and gravitation mutually influence the branching system form of the protonemata cell. It has been shown that the angle of lateral branches in darkness does not depend on the direction of light and gravitation action. After lighting the local growth of the cell wall took place mainly under the angle 90 (o) to the axes of mother cell growth. Then the angle gradually decreased and in 3-4 cell divisions the lateral branch grew under the angle 45-50 (o) to orthotropic stolon axes, and later it decreased negatively gravitropically. The bending of lateral branches of gravitropic protonemata is carried out in two stages: the light induction makes cells metabolically active, but not sensitive to gravitation, while the wall of daughter cell grows perpendicularly to the axes of mother cell and only after that the branches growth direction acquires dependent on gravitation fixed space orientation. Protonemata on light was branched under the angle 45-50 (o) to the axes of the main stolon, that caused similar phenotype of protonemata turf in many moss species. The growth of lateral branches and the set-point angle from the point of view of growth as physical process, is, perhaps, balanced by the action of gravitation and light, and is controlled endogenously by autotropic growth.

  2. Enzymes involved in branched-chain amino acid metabolism in humans.

    PubMed

    Adeva-Andany, María M; López-Maside, Laura; Donapetry-García, Cristóbal; Fernández-Fernández, Carlos; Sixto-Leal, Cristina

    2017-06-01

    Branched-chain amino acids (leucine, isoleucine and valine) are structurally related to branched-chain fatty acids. Leucine is 2-amino-4-methyl-pentanoic acid, isoleucine is 2-amino-3-methyl-pentanoic acid, and valine is 2-amino-3-methyl-butanoic acid. Similar to fatty acid oxidation, leucine and isoleucine produce acetyl-coA. Additionally, leucine generates acetoacetate and isoleucine yields propionyl-coA. Valine oxidation produces propionyl-coA, which is converted into methylmalonyl-coA and succinyl-coA. Branched-chain aminotransferase catalyzes the first reaction in the catabolic pathway of branched-chain amino acids, a reversible transamination that converts branched-chain amino acids into branched-chain ketoacids. Simultaneously, glutamate is converted in 2-ketoglutarate. The branched-chain ketoacid dehydrogenase complex catalyzes the irreversible oxidative decarboxylation of branched-chain ketoacids to produce branched-chain acyl-coA intermediates, which then follow separate catabolic pathways. Human tissue distribution and function of most of the enzymes involved in branched-chain amino acid catabolism is unknown. Congenital deficiencies of the enzymes involved in branched-chain amino acid metabolism are generally rare disorders. Some of them are associated with reduced pyruvate dehydrogenase complex activity and respiratory chain dysfunction that may contribute to their clinical phenotype. The biochemical phenotype is characterized by accumulation of the substrate to the deficient enzyme and its carnitine and/or glycine derivatives. It was established at the beginning of the twentieth century that the plasma level of the branched-chain amino acids is increased in conditions associated with insulin resistance such as obesity and diabetes mellitus. However, the potential clinical relevance of this elevation is uncertain.

  3. Extralaryngeal division of the recurrent laryngeal nerve: A common and asymmetric anatomical variant

    PubMed Central

    Uludağ, Mehmet; Yetkin, Gürkan; Oran, Ebru Şen; Aygün, Nurcihan; Celayir, Fevzi; İşgör, Adnan

    2017-01-01

    Objective Recognition of extralaryngeal branching of the recurrent laryngeal nerve is crucial because prevention of vocal cord paralysis requires preservation of all branches of the recurrent laryngeal nerve. We assessed the prevalence of extralaryngeal branching of the recurrent laryngeal nerve and the median branching distance from the point of bifurcation to the entry point of the nerve into the larynx. Material and Methods Prospective operative data on recurrent laryngeal nerve branching were collected from 94 patients who underwent thyroid or parathyroid surgery between September 2011 and May 2012. Results A total of 161 recurrent laryngeal nerves were examined (82 right, 79 left). Overall, 77 (47.8%) of 161 recurrent laryngeal nerves were bifurcated before entering the larynx. There were 36 (43.9%) branching nerves on the right and 41 (51.9%) branching nerves on the left, and there was no significant difference between the sides in terms of branching (p=0.471). Among 67 patients who underwent bilateral exploration, 28.4% were found to have bilateral branching, 40.3% had unilateral branching, and the remaining 31.3% had no branching. The median branching distance was 15 mm (5–60mm). Conclusion Extralaryngeal division of recurrent laryngeal nerve is a common and asymmetric anatomical variant. These variations can be easily recognized if the recurrent laryngeal nerve is identified at the level of the inferior thyroid artery and then dissected totally to the entry point of the larynx. Inadvertent division of a branch may lead to vocal cord palsy postoperatively, even when the surgeon believes the integrity of the nerve has been preserved. PMID:28944327

  4. Extralaryngeal division of the recurrent laryngeal nerve: A common and asymmetric anatomical variant.

    PubMed

    Uludağ, Mehmet; Yetkin, Gürkan; Oran, Ebru Şen; Aygün, Nurcihan; Celayir, Fevzi; İşgör, Adnan

    2017-01-01

    Recognition of extralaryngeal branching of the recurrent laryngeal nerve is crucial because prevention of vocal cord paralysis requires preservation of all branches of the recurrent laryngeal nerve. We assessed the prevalence of extralaryngeal branching of the recurrent laryngeal nerve and the median branching distance from the point of bifurcation to the entry point of the nerve into the larynx. Prospective operative data on recurrent laryngeal nerve branching were collected from 94 patients who underwent thyroid or parathyroid surgery between September 2011 and May 2012. A total of 161 recurrent laryngeal nerves were examined (82 right, 79 left). Overall, 77 (47.8%) of 161 recurrent laryngeal nerves were bifurcated before entering the larynx. There were 36 (43.9%) branching nerves on the right and 41 (51.9%) branching nerves on the left, and there was no significant difference between the sides in terms of branching (p=0.471). Among 67 patients who underwent bilateral exploration, 28.4% were found to have bilateral branching, 40.3% had unilateral branching, and the remaining 31.3% had no branching. The median branching distance was 15 mm (5-60mm). Extralaryngeal division of recurrent laryngeal nerve is a common and asymmetric anatomical variant. These variations can be easily recognized if the recurrent laryngeal nerve is identified at the level of the inferior thyroid artery and then dissected totally to the entry point of the larynx. Inadvertent division of a branch may lead to vocal cord palsy postoperatively, even when the surgeon believes the integrity of the nerve has been preserved.

  5. Anatomical study of the superficial temporal branches of the auriculotemporal nerve: Application to surgery and other invasive treatments to the temporal region.

    PubMed

    Iwanaga, Joe; Watanabe, Koichi; Saga, Tsuyoshi; Fisahn, Christian; Oskouian, Rod J; Tubbs, R Shane

    2017-03-01

    The auriculotemporal nerve (ATN) is one of the branches of the mandibular division of the trigeminal nerve, which gives rise to many branches to the retromandibular and temporal regions. Of these, the superficial temporal branch can occasionally be the cause of migraine headaches and auriculotemporal neuralgia. The purpose of this study was to elucidate the anatomy of the superficial temporal branch, which has never been described in detail. A total of 14 sides of cadaveric heads were used for this study. The number of superficial temporal branch was counted, and the horizontal and vertical distances from the middle of the tragus to the branching point were measured. Three of 14 sides had two main trunks, and 11 sides had one main trunk. Each of the duplicated ATN had already branches into two main trunks as they left the retromandibular space. The number of superficial temporal branches ranged from two to seven. The vertical and horizontal distances from the middle of the tragus to the branching point of the superficial temporal branch ranged from 6.19 to 25.65 mm and from 3.45 to 11.88 mm, respectively. The communicating branches occasionally formed a loop or so-called "ansa," and a double ansa was identified in one case. These data can provide surgeons a better view of the course of these distant branches, so that skin incisions can be better planned. Copyright © 2016 British Association of Plastic, Reconstructive and Aesthetic Surgeons. Published by Elsevier Ltd. All rights reserved.

  6. Cadaveric Study of the Articular Branches of the Shoulder Joint.

    PubMed

    Eckmann, Maxim S; Bickelhaupt, Brittany; Fehl, Jacob; Benfield, Jonathan A; Curley, Jonathan; Rahimi, Ohmid; Nagpal, Ameet S

    This cadaveric study investigated the anatomic relationships of the articular branches of the suprascapular (SN), axillary (AN), and lateral pectoral nerves (LPN), which are potential targets for shoulder analgesia. Sixteen embalmed cadavers and 1 unembalmed cadaver, including 33 shoulders total, were dissected. Following dissections, fluoroscopic images were taken to propose an anatomical landmark to be used in shoulder articular branch blockade. Thirty-three shoulders from 17 total cadavers were studied. In a series of 16 shoulders, 16 (100%) of 16 had an intact SN branch innervating the posterior head of the humerus and shoulder capsule. Suprascapular sensory branches coursed laterally from the spinoglenoid notch then toward the glenohumeral joint capsule posteriorly. Axillary nerve articular branches innervated the posterolateral head of the humerus and shoulder capsule in the same 16 (100%) of 16 shoulders. The AN gave branches ascending circumferentially from the quadrangular space to the posterolateral humerus, deep to the deltoid, and inserting at the inferior portion of the posterior joint capsule. In 4 previously dissected and 17 distinct shoulders, intact LPNs could be identified in 14 (67%) of 21 specimens. Of these, 12 (86%) of 14 had articular branches innervating the anterior shoulder joint, and 14 (100%) of 14 LPN articular branches were adjacent to acromial branches of the thoracoacromial blood vessels over the superior aspect of the coracoid process. Articular branches from the SN, AN, and LPN were identified. Articular branches of the SN and AN insert into the capsule overlying the glenohumeral joint posteriorly. Articular branches of the LPN exist and innervate a portion of the anterior shoulder joint.

  7. Finding the optimal lengths for three branches at a junction.

    PubMed

    Woldenberg, M J; Horsfield, K

    1983-09-21

    This paper presents an exact analytical solution to the problem of locating the junction point between three branches so that the sum of the total costs of the branches is minimized. When the cost per unit length of each branch is known the angles between each pair of branches can be deduced following reasoning first introduced to biology by Murray. Assuming the outer ends of each branch are fixed, the location of the junction and the length of each branch are then deduced using plane geometry and trigonometry. The model has applications in determining the optimal cost of a branch or branches at a junction. Comparing the optimal to the actual cost of a junction is a new way to compare cost models for goodness of fit to actual junction geometry. It is an unambiguous measure and is superior to comparing observed and optimal angles between each daughter and the parent branch. We present data for 199 junctions in the pulmonary arteries of two human lungs. For the branches at each junction we calculated the best fitting value of x from the relationship that flow alpha (radius)x. We found that the value of x determined whether a junction was best fitted by a surface, volume, drag or power minimization model. While economy of explanation casts doubt that four models operate simultaneously, we found that optimality may still operate, since the angle to the major daughter is less than the angle to the minor daughter. Perhaps optimality combined with a space filling branching pattern governs the branching geometry of the pulmonary artery.

  8. An Unusual Fatty Acyl:Adenylate Ligase (FAAL)-Acyl Carrier Protein (ACP) Didomain in Ambruticin Biosynthesis.

    PubMed

    Hemmerling, Franziska; Lebe, Karen E; Wunderlich, Johannes; Hahn, Frank

    2018-03-08

    The divinylcyclopropane (DVC) fragment of the ambruticins is proposed to be formed by a unique polyene cyclisation mechanism, in which the unusual didomain AmbG plays a key role. It is proposed to activate the branched thioester carboxylic acid resulting from polyene cyclisation and to transfer it to its associated acyl carrier protein (ACP). After oxidative decarboxylation, the intermediate is channelled back into polyketide synthase (PKS) processing. AmbG was previously annotated as an adenylation-thiolation didomain with a very unusual substrate selectivity code but has not yet been biochemically studied. On the basis of sequence and homology model analysis, we reannotate AmbG as a fatty acyl:adenylate ligase (FAAL)-acyl carrier protein didomain with unusual substrate specificity. The expected adenylate-forming activity on fatty acids was confirmed by in vitro studies. AmbG also adenylates a number of structurally diverse carboxylic acids, including functionalised fatty acids and unsaturated and aromatic carboxylic acids. HPLC-MS analysis and competition experiments show that AmbG preferentially acylates its ACP with long-chain hydrophobic acids and tolerates a π system and a branch near the carboxylic acid. AmbG is the first characterised example of a FAAL-ACP didomain that is centrally located in a PKS and apparently activates a polyketidic intermediate. This is an important step towards deeper biosynthetic studies such as partial reconstitution of the ambruticin pathway to elucidate DVC formation. © 2018 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

  9. A mutation in EXO1 defines separable roles in DNA mismatch repair and post-replication repair

    PubMed Central

    Tran, Phuoc T.; Fey, Julien P.; Erdeniz, Naz; Gellon, Lionel; Boiteux, Serge; Liskay, R. Michael

    2007-01-01

    Replication forks stall at DNA lesions or as a result of an unfavorable replicative environment. These fork stalling events have been associated with recombination and gross chromosomal rearrangements. Recombination and fork bypass pathways are the mechanisms accountable for restart of stalled forks. An important lesion bypass mechanism is the highly conserved post-replication repair (PRR) pathway that is composed of error-prone translesion and error-free bypass branches. EXO1 codes for a Rad2p family member nuclease that has been implicated in a multitude of eukaryotic DNA metabolic pathways that include DNA repair, recombination, replication, and telomere integrity. In this report, we show EXO1 functions in the MMS2 error-free branch of the PRR pathway independent of the role of EXO1 in DNA mismatch repair (MMR). Consistent with the idea that EXO1 functions independently in two separate pathways, we defined a domain of Exo1p required for PRR distinct from those required for interaction with MMR proteins. We then generated a point mutant exo1 allele that was defective for the function of Exo1p in MMR due to disrupted interaction with Mlh1p, but still functional for PRR. Lastly, by using a compound exo1 mutant that was defective for interaction with Mlh1p and deficient for nuclease activity, we provide further evidence that Exo1p plays both structural and catalytic roles during MMR. PMID:17602897

  10. Closed-Cycle Engine Program Used to Study Brayton Power Conversion

    NASA Technical Reports Server (NTRS)

    Johnson, Paul K.

    2005-01-01

    One form of power conversion under consideration in NASA Glenn Research Center's Thermal Energy Conversion Branch is the closed-Brayton-cycle engine. In the tens-of-kilowatts to multimegawatt class, the Brayton engine lends itself to potential space nuclear power applications such as electric propulsion or surface power. The Thermal Energy Conversion Branch has most recently concentrated its Brayton studies on electric propulsion for Prometheus. One piece of software used for evaluating such designs over a limited tradeoff space has been the Closed Cycle Engine Program (CCEP). The CCEP originated in the mid-1980s from a Fortran aircraft engine code known as the Navy/NASA Engine Program (NNEP). Components such as a solar collector, heat exchangers, ducting, a pumped-loop radiator, a nuclear heat source, and radial turbomachinery were added to NNEP, transforming it into a high-fidelity design and performance tool for closed-Brayton-cycle power conversion and heat rejection. CCEP was used in the 1990s in conjunction with the Solar Dynamic Ground Test Demonstration conducted at Glenn. Over the past year, updates were made to CCEP to adapt it for an electric propulsion application. The pumped-loop radiator coolant can now be n-heptane, water, or sodium-potassium (NaK); liquid-metal pump design tables were added to accommodate the NaK fluid. For the reactor and shield, a user can now elect to calculate a higher fidelity mass estimate. In addition, helium-xenon working-fluid properties were recalculated and updated.

  11. Toroidal modelling of resistive internal kink and fishbone instabilities

    NASA Astrophysics Data System (ADS)

    Wu, Tingting; He, Hongda; Liu, Yueqiang; Liu, Yue; Hao, G. Z.; Zhu, Jinxia

    2018-05-01

    The influence of energetic particles and plasma resistivity on the n =1 ( n is the toroidal mode number) internal kink and fishbone modes in tokamak plasmas is numerically investigated, using the full toroidal, resistive magnetohydrodynamic-kinetic hybrid stability code MARS-K [Liu et al., Phys. Plasmas 15 112503 (2008)]. The results show that energetic particles can either stabilize or destabilize the ideal internal kink mode, depending on the radial profiles of the particles' density and pressure. Resistive fishbones with and without an ideal wall are investigated. It is found that, in the presence of energetic particles as well as plasma resistivity, two branches of unstable roots exist, for a plasma which is ideally stable to the internal kink instability. One is the resistive internal kink mode. The other is the resistive fishbone mode. These two-branch solutions show similar behaviors, independent of whether the initial ideal kink stability is due to an ideal wall stabilization for high-beta plasmas, or due to a stable equilibrium below the Bussac pressure limit. For a realistic toroidal plasma, the resistive internal kink is the dominant instability, which grows much faster than the resistive fishbone. The plasma resistivity destabilizes the resistive internal kink while stabilizes the resistive fishbone. Systematic comparison with an analytic model qualitatively confirms the MARS-K results. Compared to analytic models based on the perturbative approach, MARS-K offers an improved physics model via self-consistent treatment of coupling between the fluid and kinetic effects due to energetic particles.

  12. Ectopic expression of different cytokinin-regulated transcription factor genes of Arabidopsis thaliana alters plant growth and development.

    PubMed

    Köllmer, Ireen; Werner, Tomáš; Schmülling, Thomas

    2011-08-15

    The plant hormone cytokinin rapidly alters the steady state transcript levels of a number of transcription factor genes suggesting that these might have a function in mediating cytokinin effects. Here we report the analysis of Arabidopsis thaliana plants with an altered expression level of four different cytokinin-regulated transcription factor genes. These include GATA22 (also known as CGA1/GNL), two genes coding for members of the homeodomain zip (HD zip) class II transcription factor family (HAT4, HAT22), and bHLH64. Ectopic expression of the GATA22 gene induced the development of chloroplasts in root tissue where it is normally suppressed and led to the formation of shorter and less branched roots. Overexpression of HAT22 lowered the seedlings chlorophyll content and caused an earlier onset of leaf senescence. Enhanced expression of the HAT4 gene led to severe defects in inflorescence stem development and to a decrease in root growth and branching, while hat4 insertional mutants developed a larger root system. 35S:bHLH64 transgenic plants showed a pleiotropic phenotype, consisting of larger rosettes, reduced chlorophyll content and an elongated and thickened hypocotyl. Flower development was strongly disturbed leading to sterile plants. The results are consistent with specific functions of these transcription factor genes in regulating part of the cytokinin activities and suggest their action as convergence point with other signalling pathways, particularly those of gibberellin and light. Copyright © 2011 Elsevier GmbH. All rights reserved.

  13. Animal derived products may conflict with religious patients’ beliefs

    PubMed Central

    2013-01-01

    Background Implants and drugs with animal and human derived content are widely used in medicine and surgery, but information regarding ingredients is rarely obtainable by health practitioners. A religious perspective concerning the use of animal and human derived drug ingredients has not thoroughly been investigated. The purpose of this study was to clarify which parts of the medical and surgical treatments offered in western world-hospitals that conflicts with believers of major religions. Methods Religious and spiritual leaders of the six largest religions worldwide (18 branches) were contacted. A standardised questionnaire was sent out regarding their position on the use of human and animal derived products in medical and surgical treatments. Results Of the 18 contacted religious branches, 10 replied representing the 6 largest religions worldwide. Hindus and Sikhs did not approve of the use of bovine or porcine derived products, and Muslims did not accept the use of porcine derived drugs, dressings or implants. Christians (including Jehovah’s Witnesses), Jews and Buddhists accepted the use of all animal and human derived products. However, all religions accepted the use of all these products in case of an emergency and only if alternatives were not available. Conclusions The views here suggest that religious codes conflict with some treatment regimens. It is crucial to obtain informed consent from patients for the use of drugs and implants with animal or human derived content. However, information on the origin of ingredients in drugs is not always available to health practitioners. PMID:24289542

  14. Sensitivity of wave propagation in the LHRF to initial poloidal position in finite-aspect-ratio toroidal plasmas

    NASA Astrophysics Data System (ADS)

    Larson, J. J.; Pinsker, R. I.; Bonoli, P. T.; Porkolab, M.

    2017-10-01

    The important effect of varying the initial poloidal wave-launching location to the core accessibility of lower hybrid slow waves in a torus of finite aspect ratio has been understood for many years. Since the qualitative properties of the wave propagation of the other branch in this regime, known as the `whistler', `helicon' or simply the `fast wave', are similar in some ways to those of the slow wave, we expect a dependence on launch position for this wave also. We study this problem for both slow and fast waves, first with simplified analytic models and then using the ray-tracing code GENRAY for realistic plasma equilibria. We assess the prospects of inside, top, bottom or conventional outside launch of waves on each of the two branches. Although the slow wave has been the focus of research for LHRF heating and current drive in the past, the fast wave will play a major role in burning plasmas beyond ITER where Te(0) = 10-20 keV. The stronger electron Landau damping of the slow wave will restrict the power deposition to the outer third of the plasma, while the fast wave's weaker damping allows the wave to penetrate to the hot plasma core before depositing its power. Work supported in part by US DoE under the Science Undergraduate Laboratory Internship (SULI) program and under DE-FC02-04ER54698 and DE-FG02-91-ER54109.

  15. Successful domino liver transplantation in maple syrup urine disease using a related living donor

    PubMed Central

    Feier, F.H.; Miura, I.K.; Fonseca, E.A.; Porta, G.; Pugliese, R.; Porta, A.; Schwartz, I.V.D.; Margutti, A.V.B.; Camelo, J.S.; Yamaguchi, S.N.; Taveira, A.T.; Candido, H.; Benavides, M.; Danesi, V.; Guimaraes, T.; Kondo, M.; Chapchap, P.; Seda, J.

    2014-01-01

    Maple syrup urine disease (MSUD) is an autosomal recessive disease associated with high levels of branched-chain amino acids. Children with MSUD can present severe neurological damage, but liver transplantation (LT) allows the patient to resume a normal diet and avoid further neurological damage. The use of living related donors has been controversial because parents are obligatory heterozygotes. We report a case of a 2-year-old child with MSUD who underwent a living donor LT. The donor was the patient's mother, and his liver was then used as a domino graft. The postoperative course was uneventful in all three subjects. DNA analysis performed after the transplantation (sequencing of the coding regions of BCKDHA, BCKDHB, and DBT genes) showed that the MSUD patient was heterozygous for a pathogenic mutation in the BCKDHB gene. This mutation was not found in his mother, who is an obligatory carrier for MSUD according to the family history and, as expected, presented both normal clinical phenotype and levels of branched-chain amino acids. In conclusion, our data suggest that the use of a related donor in LT for MSUD was effective, and the liver of the MSUD patient was successfully used in domino transplantation. Routine donor genotyping may not be feasible, because the test is not widely available, and, most importantly, the disease is associated with both the presence of allelic and locus heterogeneity. Further studies with this population of patients are required to expand the use of related donors in MSUD. PMID:24770567

  16. Animal derived products may conflict with religious patients' beliefs.

    PubMed

    Eriksson, Axelina; Burcharth, Jakob; Rosenberg, Jacob

    2013-12-01

    Implants and drugs with animal and human derived content are widely used in medicine and surgery, but information regarding ingredients is rarely obtainable by health practitioners. A religious perspective concerning the use of animal and human derived drug ingredients has not thoroughly been investigated. The purpose of this study was to clarify which parts of the medical and surgical treatments offered in western world-hospitals that conflicts with believers of major religions. Religious and spiritual leaders of the six largest religions worldwide (18 branches) were contacted. A standardised questionnaire was sent out regarding their position on the use of human and animal derived products in medical and surgical treatments. Of the 18 contacted religious branches, 10 replied representing the 6 largest religions worldwide. Hindus and Sikhs did not approve of the use of bovine or porcine derived products, and Muslims did not accept the use of porcine derived drugs, dressings or implants. Christians (including Jehovah's Witnesses), Jews and Buddhists accepted the use of all animal and human derived products. However, all religions accepted the use of all these products in case of an emergency and only if alternatives were not available. The views here suggest that religious codes conflict with some treatment regimens. It is crucial to obtain informed consent from patients for the use of drugs and implants with animal or human derived content. However, information on the origin of ingredients in drugs is not always available to health practitioners.

  17. Increased electron temperature turbulence during suppression of edge localized mode by resonant magnetic perturbations in the DIII-D tokamak

    NASA Astrophysics Data System (ADS)

    Sung, C.; Wang, G.; Rhodes, T. L.; Smith, S. P.; Osborne, T. H.; Ono, M.; McKee, G. R.; Yan, Z.; Groebner, R. J.; Davis, E. M.; Zeng, L.; Peebles, W. A.; Evans, T. E.

    2017-11-01

    The first observation of increased electron temperature turbulence during edge localized mode (ELM) suppression by resonant magnetic perturbations (RMPs) is presented. These are long wavelength fluctuations (kθρs ≤ 0.2, where kθ = poloidal wavenumber and ρs = ion sound gyroradius) observed during H-mode plasmas on the DIII-D. This increase occurs only after ELMs are suppressed and are not observed during the initial RMP application. The T˜ e/Te increases ( >60%) are coincident with changes in normalized density and electron temperature gradients in the region from the top of the pedestal outward to the upper portion of the steep edge gradient. Density turbulence (kθρs ≤ 0.4) in this location was also observed to increase only after ELM suppression. These results are significant since they indicate that increased gradient-driven turbulent transport is one possible mechanism to regulate and maintain ELM-free H-mode operation. Investigation of linear stability of drift wave instabilities using the CGYRO code [Candy et al., J. Comput. Phys. 324, 73 (2016)] shows that the dominant mode moves closer to the electron mode branch from the ion mode branch only after ELMs are suppressed, correlated with the increased turbulence. The increased turbulence during ELM suppression, rather than with the initial RMP application, indicates that the often observed RMP induced "density pump-out" cannot be attributed to long wavelength edge turbulence level changes.

  18. Phylogenomics of a rapid radiation: is chromosomal evolution linked to increased diversification in north american spiny lizards (Genus Sceloporus)?

    PubMed

    Leaché, Adam D; Banbury, Barbara L; Linkem, Charles W; de Oca, Adrián Nieto-Montes

    2016-03-22

    Resolving the short phylogenetic branches that result from rapid evolutionary diversification often requires large numbers of loci. We collected targeted sequence capture data from 585 nuclear loci (541 ultraconserved elements and 44 protein-coding genes) to estimate the phylogenetic relationships among iguanian lizards in the North American genus Sceloporus. We tested for diversification rate shifts to determine if rapid radiation in the genus is correlated with chromosomal evolution. The phylogenomic trees that we obtained for Sceloporus using concatenation and coalescent-based species tree inference provide strong support for the monophyly and interrelationships among nearly all major groups. The diversification analysis supported one rate shift on the Sceloporus phylogeny approximately 20-25 million years ago that is associated with the doubling of the speciation rate from 0.06 species/million years (Ma) to 0.15 species/Ma. The posterior probability for this rate shift occurring on the branch leading to the Sceloporus species groups exhibiting increased chromosomal diversity is high (posterior probability = 0.997). Despite high levels of gene tree discordance, we were able to estimate a phylogenomic tree for Sceloporus that solves some of the taxonomic problems caused by previous analyses of fewer loci. The taxonomic changes that we propose using this new phylogenomic tree help clarify the number and composition of the major species groups in the genus. Our study provides new evidence for a putative link between chromosomal evolution and the rapid divergence and radiation of Sceloporus across North America.

  19. Leading Process Branch Instability in Lis1+/− Nonradially Migrating Interneurons

    PubMed Central

    Gopal, Pallavi P.; Simonet, Jacqueline C.; Shapiro, William

    2010-01-01

    Mammalian forebrain development requires extensive migration, yet the mechanisms through which migrating neurons sense and respond to guidance cues are not well understood. Similar to the axon growth cone, the leading process and branches of neurons may guide migration, but the cytoskeletal events that regulate branching are unknown. We have previously shown that loss of microtubule-associated protein Lis1 reduces branching during migration compared with wild-type neurons. Using time-lapse imaging of Lis1+/− and Lis1+/+ cells migrating from medial ganglionic eminence explant cultures, we show that the branching defect is not due to a failure to initiate branches but a defect in the stabilization of new branches. The leading processes of Lis1+/− neurons have reduced expression of stabilized, acetylated microtubules compared with Lis1+/+ neurons. To determine whether Lis1 modulates branch stability through its role as the noncatalytic β regulatory subunit of platelet-activating factor (PAF) acetylhydrolase 1b, exogenous PAF was applied to wild-type cells. Excess PAF added to wild-type neurons phenocopies the branch instability observed in Lis1+/− neurons, and a PAF antagonist rescues leading process branching in Lis1+/− neurons. These data highlight a role for Lis1, acting through the PAF pathway, in leading process branching and microtubule stabilization. PMID:19861636

  20. 33 CFR 117.391 - Chicago River.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... Branch of Chicago River from the Main Branch to North Halsted Street, mile 2.65, and bridges on the South Branch of Chicago River from the Main Branch to South Ashland Avenue, mile 4.47, shall operate as follows... passage of vessels: The draws of South Damen Avenue, mile 6.14, over South Branch of Chicago River; all...

  1. 33 CFR 117.391 - Chicago River.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... Branch of Chicago River from the Main Branch to North Halsted Street, mile 2.65, and bridges on the South Branch of Chicago River from the Main Branch to South Ashland Avenue, mile 4.47, shall operate as follows... passage of vessels: The draws of South Damen Avenue, mile 6.14, over South Branch of Chicago River; all...

  2. 33 CFR 117.391 - Chicago River.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... Branch of Chicago River from the Main Branch to North Halsted Street, mile 2.65, and bridges on the South Branch of Chicago River from the Main Branch to South Ashland Avenue, mile 4.47, shall operate as follows... passage of vessels: The draws of South Damen Avenue, mile 6.14, over South Branch of Chicago River; all...

  3. Building Virtual Spaces for Children in the Digital Branch

    ERIC Educational Resources Information Center

    DuBroy, Michelle

    2010-01-01

    Purpose: A digital branch is just like a physical branch except that content is delivered digitally via the web. A digital branch has staff, a collection, a community, and a building. The purpose of this paper is to explore the concept of building individual spaces for different user groups, specifically children, within a digital branch.…

  4. 12 CFR 208.6 - Establishment and maintenance of branches.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... the Board's Regulation K (12 CFR part 211). (3) Public notice of branch applications. (i) Location of... 12 Banks and Banking 2 2011-01-01 2011-01-01 false Establishment and maintenance of branches. 208... maintenance of national bank branches (12 U.S.C. 36 and 1831u), except that approval of such branches shall be...

  5. Predicting the cover-up of dead branches using a simple single regressor equation

    Treesearch

    Christopher M. Oswalt; Wayne K. Clatterbuck; E.C. Burkhardt

    2007-01-01

    Information on the effects of branch diameter on branch occlusion is necessary for building models capable of forecasting the effect of management decisions on tree or log grade. We investigated the relationship between branch size and subsequent branch occlusion through diameter growth with special attention toward the development of a simple single regressor equation...

  6. The Drosophila homologue of SRF acts as a boosting mechanism to sustain FGF-induced terminal branching in the tracheal system.

    PubMed

    Gervais, Louis; Casanova, Jordi

    2011-04-01

    Recent data have demonstrated a crucial role for the transcription factor SRF (serum response factor) downstream of VEGF and FGF signalling during branching morphogenesis. This is the case for sprouting angiogenesis in vertebrates, axonal branching in mammals and terminal branching of the Drosophila tracheal system. However, the specific functions of SRF in these processes remain unclear. Here, we establish the relative contributions of the Drosophila homologues of FGF [Branchless (BNL)] and SRF [Blistered (BS)] in terminal tracheal branching. Conversely to an extended view, we show that BNL triggers terminal branching initiation in a DSRF-independent mechanism and that DSRF transcription induced by BNL signalling is required to maintain terminal branch elongation. Moreover, we report that increased and continuous FGF signalling can trigger tracheal cells to develop full-length terminal branches in the absence of DSRF transcription. Our results indicate that DSRF acts as an amplifying step to sustain the progression of terminal branch elongation even in the wild-type conditions of FGF signalling.

  7. [Branches of the National Institute of Hygiene].

    PubMed

    Gromulska, Marta

    2008-01-01

    National Epidemiological Institute (National Institute of Hygiene, from 7th September 1923) was established in 1918 in Warsaw and acted at national level. Its actions in the field of diseases combat were supported by bacteriological stations and vaccine production in voivodeship cities, which were taken charge of by the state, and names "National Epidemiological Institutes". According to the ministers resolution from 6th July 1921,Epidemiological Institutes were merged to National Central Epidemiological Institutes (PZH), the epidemiological institutes outside Warsaw were named branches, which were to be located in every voivodeship city, according to the initial organizational resolutions. There were country branches of NCEI in: Cracow, Lwów, Lódź, Toruń, Lublin, and Wilno in the period 1919-1923. New branches in Poznań (1925), Gdynia(1934), Katowice (Voivodeship Institute of Hygiene (1936), Luck (1937), Stanisławów (1937), Kielce(1938), and Brześć/Bug (Municipal Station acting as branch of National Central Epidemiological Institute. Branches were subordinated to NCEI-PZH) in Warsaw where action plans and unified research and diagnostic method were established and annual meeting of the country branches managers took place. All branches cooperated with hospitals, national health services, district general practitioners and administration structure in control of infectious diseases. In 1938, the post of branch inspector was established, the first of whom was Feliks Przesmycki PhD. Branches cooperated also with University of Cracow, University of Lwów and University of Wilno. In 1935, National Institutes of Food Research was incorporated in PZH, Water Department was established, and these areas of activity began to develop in the branches accordingly. In 1938 there were 13 branches of PZH, and each had three divisions: bacteriological, food research and water research. Three branches in Cracow, Kielce and Lublin worked during World War II under German supervision. PZH activities were restored in 1945 with new branches in Gdańsk, Wrocław(1945), Olsztyn and Szczecin (1947), and Rzeszów (1950). In 1951 there were already 14 country branches of National Institute of Hygiene (PZH) in voivodeship cities and 4 minor branches in Zakopane, Radom, Czestochowa and Walbrzych. In 31th December branches of the National Institute of Hygiene (PZH) were restructured and named Sanitary-Epidemiological Stations.

  8. Novel fatty acid methyl esters from the actinomycete Micromonospora aurantiaca

    PubMed Central

    Bruns, Hilke; Riclea, Ramona

    2011-01-01

    Summary The volatiles released by Micromonospora aurantiaca were collected by means of a closed-loop stripping apparatus (CLSA) and analysed by GC–MS. The headspace extracts contained more than 90 compounds from different classes. Fatty acid methyl esters (FAMEs) comprised the major compound class including saturated unbranched, monomethyl and dimethyl branched FAMEs in diverse structural variants: Unbranched, α-branched, γ-branched, (ω−1)-branched, (ω−2)-branched, α- and (ω−1)-branched, γ- and (ω−1)-branched, γ- and (ω−2)-branched, and γ- and (ω−3)-branched FAMEs. FAMEs of the last three types have not been described from natural sources before. The structures for all FAMEs have been suggested based on their mass spectra and on a retention index increment system and verified by the synthesis of key reference compounds. In addition, the structures of two FAMEs, methyl 4,8-dimethyldodecanoate and the ethyl-branched compound methyl 8-ethyl-4-methyldodecanoate were deduced from their mass spectra. Feeding experiments with isotopically labelled [2H10]leucine, [2H10]isoleucine, [2H8]valine, [2H5]sodium propionate, and [methyl-2H3]methionine demonstrated that the responsible fatty acid synthase (FAS) can use different branched and unbranched starter units and is able to incorporate methylmalonyl-CoA elongation units for internal methyl branches in various chain positions, while the methyl ester function is derived from S-adenosyl methionine (SAM). PMID:22238549

  9. Hybrid Direct-Current Circuit Breaker

    NASA Technical Reports Server (NTRS)

    Wang, Ruxi (Inventor); Premerlani, William James (Inventor); Caiafa, Antonio (Inventor); Pan, Yan (Inventor)

    2017-01-01

    A circuit breaking system includes a first branch including at least one solid-state snubber; a second branch coupled in parallel to the first branch and including a superconductor and a cryogenic contactor coupled in series; and a controller operatively coupled to the at least one solid-state snubber and the cryogenic contactor and programmed to, when a fault occurs in the load circuit, activate the at least one solid-state snubber for migrating flow of the electrical current from the second branch to the first branch, and, when the fault is cleared in the load circuit, activate the cryogenic contactor for migrating the flow of the electrical current from the first branch to the second branch.

  10. Nitric oxide concentration measurements in atmospheric pressure flames using electronic-resonance-enhanced coherent anti-Stokes Raman scattering

    NASA Astrophysics Data System (ADS)

    Chai, N.; Kulatilaka, W. D.; Naik, S. V.; Laurendeau, N. M.; Lucht, R. P.; Kuehner, J. P.; Roy, S.; Katta, V. R.; Gord, J. R.

    2007-06-01

    We report the application of electronic-resonance-enhanced coherent anti-Stokes Raman scattering (ERE-CARS) for measurements of nitric oxide concentration ([NO]) in three different atmospheric pressure flames. Visible pump (532 nm) and Stokes (591 nm) beams are used to probe the Q-branch of the Raman transition. A significant resonance enhancement is obtained by tuning an ultraviolet probe beam (236 nm) into resonance with specific rotational transitions in the (v’=0, v”=1) vibrational band of the A2Σ+-X2Π electronic system of NO. ERE-CARS spectra are recorded at various heights within a hydrogen-air flame producing relatively low concentrations of NO over a Hencken burner. Good agreement is obtained between NO ERE-CARS measurements and the results of flame computations using UNICORN, a two-dimensional flame code. Excellent agreement between measured and calculated NO spectra is also obtained when using a modified version of the Sandia CARSFT code for heavily sooting acetylene-air flames (φ=0.8 to φ=1.6) on the same Hencken burner. Finally, NO concentration profiles are measured using ERE-CARS in a laminar, counter-flow, non-premixed hydrogen-air flame. Spectral scans are recorded by probing the Q1 (9.5), Q1 (13.5) and Q1 (17.5) Raman transitions. The measured shape of the [NO] profile is in good agreement with that predicted using the OPPDIF code, even without correcting for collisional effects. These comparisons between [NO] measurements and predictions establish the utility of ERE-CARS for detection of NO in flames with large temperature and concentration gradients as well as in sooting environments.

  11. CyNEST: a maintainable Cython-based interface for the NEST simulator

    PubMed Central

    Zaytsev, Yury V.; Morrison, Abigail

    2014-01-01

    NEST is a simulator for large-scale networks of spiking point neuron models (Gewaltig and Diesmann, 2007). Originally, simulations were controlled via the Simulation Language Interpreter (SLI), a built-in scripting facility implementing a language derived from PostScript (Adobe Systems, Inc., 1999). The introduction of PyNEST (Eppler et al., 2008), the Python interface for NEST, enabled users to control simulations using Python. As the majority of NEST users found PyNEST easier to use and to combine with other applications, it immediately displaced SLI as the default NEST interface. However, developing and maintaining PyNEST has become increasingly difficult over time. This is partly because adding new features requires writing low-level C++ code intermixed with calls to the Python/C API, which is unrewarding. Moreover, the Python/C API evolves with each new version of Python, which results in a proliferation of version-dependent code branches. In this contribution we present the re-implementation of PyNEST in the Cython language, a superset of Python that additionally supports the declaration of C/C++ types for variables and class attributes, and provides a convenient foreign function interface (FFI) for invoking C/C++ routines (Behnel et al., 2011). Code generation via Cython allows the production of smaller and more maintainable bindings, including increased compatibility with all supported Python releases without additional burden for NEST developers. Furthermore, this novel approach opens up the possibility to support alternative implementations of the Python language at no cost given a functional Cython back-end for the corresponding implementation, and also enables cross-compilation of Python bindings for embedded systems and supercomputers alike. PMID:24672470

  12. Deep developmental transcriptome sequencing uncovers numerous new genes and enhances gene annotation in the sponge Amphimedon queenslandica.

    PubMed

    Fernandez-Valverde, Selene L; Calcino, Andrew D; Degnan, Bernard M

    2015-05-15

    The demosponge Amphimedon queenslandica is amongst the few early-branching metazoans with an assembled and annotated draft genome, making it an important species in the study of the origin and early evolution of animals. Current gene models in this species are largely based on in silico predictions and low coverage expressed sequence tag (EST) evidence. Amphimedon queenslandica protein-coding gene models are improved using deep RNA-Seq data from four developmental stages and CEL-Seq data from 82 developmental samples. Over 86% of previously predicted genes are retained in the new gene models, although 24% have additional exons; there is also a marked increase in the total number of annotated 3' and 5' untranslated regions (UTRs). Importantly, these new developmental transcriptome data reveal numerous previously unannotated protein-coding genes in the Amphimedon genome, increasing the total gene number by 25%, from 30,060 to 40,122. In general, Amphimedon genes have introns that are markedly smaller than those in other animals and most of the alternatively spliced genes in Amphimedon undergo intron-retention; exon-skipping is the least common mode of alternative splicing. Finally, in addition to canonical polyadenylation signal sequences, Amphimedon genes are enriched in a number of unique AT-rich motifs in their 3' UTRs. The inclusion of developmental transcriptome data has substantially improved the structure and composition of protein-coding gene models in Amphimedon queenslandica, providing a more accurate and comprehensive set of genes for functional and comparative studies. These improvements reveal the Amphimedon genome is comprised of a remarkably high number of tightly packed genes. These genes have small introns and there is pervasive intron retention amongst alternatively spliced transcripts. These aspects of the sponge genome are more similar unicellular opisthokont genomes than to other animal genomes.

  13. Similar but not the same: insights into the evolutionary history of paralogous sex-determining genes of the dwarf honey bee Apis florea.

    PubMed

    Biewer, M; Lechner, S; Hasselmann, M

    2016-01-01

    Studying the fate of duplicated genes provides informative insight into the evolutionary plasticity of biological pathways to which they belong. In the paralogous sex-determining genes complementary sex determiner (csd) and feminizer (fem) of honey bee species (genus Apis), only heterozygous csd initiates female development. Here, the full-length coding sequences of the genes csd and fem of the phylogenetically basal dwarf honey bee Apis florea are characterized. Compared with other Apis species, remarkable evolutionary changes in the formation and localization of a protein-interacting (coiled-coil) motif and in the amino acids coding for the csd characteristic hypervariable region (HVR) are observed. Furthermore, functionally different csd alleles were isolated as genomic fragments from a random population sample. In the predicted potential specifying domain (PSD), a high ratio of πN/πS=1.6 indicated positive selection, whereas signs of balancing selection, commonly found in other Apis species, are missing. Low nucleotide diversity on synonymous and genome-wide, non-coding sites as well as site frequency analyses indicated a strong impact of genetic drift in A. florea, likely linked to its biology. Along the evolutionary trajectory of ~30 million years of csd evolution, episodic diversifying selection seems to have acted differently among distinct Apis branches. Consistently low amino-acid differences within the PSD among pairs of functional heterozygous csd alleles indicate that the HVR is the most important region for determining allele specificity. We propose that in the early history of the lineage-specific fem duplication giving rise to csd in Apis, A. florea csd stands as a remarkable example for the plasticity of initial sex-determining signals.

  14. Theria-Specific Homeodomain and cis-Regulatory Element Evolution of the Dlx3–4 Bigene Cluster in 12 Different Mammalian Species

    PubMed Central

    SUMIYAMA, KENTA; MIYAKE, TSUTOMU; GRIMWOOD, JANE; STUART, ANDREW; DICKSON, MARK; SCHMUTZ, JEREMY; RUDDLE, FRANK H.; MYERS, RICHARD M.; AMEMIYA, CHRIS T.

    2013-01-01

    The mammalian Dlx3 and Dlx4 genes are configured as a bigene cluster, and their respective expression patterns are controlled temporally and spatially by cis-elements that largely reside within the intergenic region of the cluster. Previous work revealed that there are conspicuously conserved elements within the intergenic region of the Dlx3–4 bigene clusters of mouse and human. In this paper we have extended these analyses to include 12 additional mammalian taxa (including a marsupial and a monotreme) in order to better define the nature and molecular evolutionary trends of the coding and non-coding functional elements among morphologically divergent mammals. Dlx3–4 regions were fully sequenced from 12 divergent taxa of interest. We identified three theria-specific amino acid replacements in homeodomain of Dlx4 gene that functions in placenta. Sequence analyses of constrained nucleotide sites in the intergenic non-coding region showed that many of the intergenic conserved elements are highly conserved and have evolved slowly within the mammals. In contrast, a branchial arch/craniofacial enhancer I37-2 exhibited accelerated evolution at the branch between the monotreme and therian common ancestor despite being highly conserved among therian species. Functional analysis of I37-2 in transgenic mice has shown that the equivalent region of the platypus fails to drive transcriptional activity in branchial arches. These observations, taken together with our molecular evolutionary data, suggest that theria-specific episodic changes in the I37-2 element may have contributed to craniofacial innovation at the base of the mammalian lineage. PMID:22951979

  15. Branch regeneration induced by sever damage in the brown alga Dictyota dichotoma (dictyotales, phaeophyceae).

    PubMed

    Tanaka, Atsuko; Hoshino, Yoichiro; Nagasato, Chikako; Motomura, Taizo

    2017-05-01

    Tissue wounds are mainly caused by herbivory, which is a serious threat for macro-algae, and brown algae are known to regenerate branches or buds in response to wounding. In the present paper, we describe a branch regeneration system, induced by sever damage, in the brown alga Dictyota dichotoma. Segmentations of juvenile thalli induced branch regenerations unless explants possessed apical cells. Apical excisions in distinct positions elucidated that disruption of an apical cell or disconnection of tissue with an apical cell triggered the branch regeneration. Furthermore, spatial positions of regenerated branches seemed to be regulated by the apical region, which was assumed to generate inhibitory effects for lateral branch regeneration. Mechanical incision, which disrupted tissue continuity with the apical region, induced branch regeneration preferentially below the incision. Although we were unable to identify the candidate inhibitory substance, our results suggested that the apical region may have an inhibitory effect on lateral branch regeneration. Additionally, observations of branch regeneration showed that all epidermal cells in D. dichotoma possess the ability to differentiate into apical cells, directly. This may be the first report of algal transdifferentiation during the wound-stress response.

  16. Are the interarytenoid muscles supplied by branches of both the recurrent and superior laryngeal nerves?

    PubMed

    Pascual-Font, Arán; Cubillos, Luis; Vázquez, Teresa; McHanwell, Steve; Sañudo, José R; Maranillo, Eva

    2016-05-01

    It has been generally accepted that the branches of the internal branch of the superior laryngeal nerve to the interarytenoid muscle are exclusively sensory. However, some experimental studies have suggested that these branches may contain motor axons, and therefore that the interarytenoid muscle is supplied by both the superior and recurrent laryngeal nerves. The aim of this work was to determine whether motor axons to the interarytenoid muscles are present in both laryngeal nerves. Basic research. Twelve human internal branches of the superior laryngeal nerve were dissected, and its branches to the interarytenoid muscle were removed and processed for choline-acetyltransferase immunohistochemistry, a method not used previously in studying the nerve fiber composition of the laryngeal nerves. The internal branch of the superior laryngeal nerve divided into two to five branches to the interarytenoid muscle. All branches contained motor axons, with the proportion of motor axons varying from 6% to 31%. The present study confirms that the internal branch of the superior laryngeal nerve provides a motor innervation to the interarytenoid muscles. N/A. Laryngoscope, 126:1117-1122, 2016. © 2015 The American Laryngological, Rhinological and Otological Society, Inc.

  17. Intralaryngeal neuroanatomy of the recurrent laryngeal nerve of the rabbit

    PubMed Central

    Ryan, Stephen; McNicholas, Walter T; O'Regan, Ronan G; Nolan, Philip

    2003-01-01

    We undertook this study to determine the detailed neuroanatomy of the terminal branches of the recurrent laryngeal nerve (RLN) in the rabbit to facilitate future neurophysiological recordings from identified branches of this nerve. The whole larynx was isolated post mortem in 17 adult New Zealand White rabbits and prepared using a modified Sihler's technique, which stains axons and renders other tissues transparent so that nerve branches can be seen in whole mount preparations. Of the 34 hemi-laryngeal preparations processed, 28 stained well and these were dissected and used to characterize the neuroanatomy of the RLN. In most cases (23/28) the posterior cricoarytenoid muscle (PCA) was supplied by a single branch arising from the RLN, though in five PCA specimens there were two or three separate branches to the PCA. The interarytenoid muscle (IA) was supplied by two parallel filaments arising from the main trunk of the RLN rostral to the branch(es) to the PCA. The lateral cricoarytenoid muscle (LCA) commonly received innervation from two fine twigs branching from the RLN main trunk and travelling laterally towards the LCA. The remaining fibres of the RLN innervated the thyroarytenoid muscle (TA) and comprised two distinct branches, one supplying the pars vocalis and the other branching extensively to supply the remainder of the TA. No communicating anastomosis between the RLN and superior laryngeal nerve within the larynx was found. Our results suggest it is feasible to make electrophysiological recordings from identified terminal branches of the RLN supplying laryngeal adductor muscles separate from the branch or branches to the PCA. However, the very small size of the motor nerves to the IA and LCA suggests that it would be very difficult to record selectively from the nerve supply to individual laryngeal adductor muscles. PMID:12739619

  18. MOBI and FEANICS Programming in Labview

    NASA Technical Reports Server (NTRS)

    Rios, Jeffrey N.

    2004-01-01

    The flight software engineering branch provides design and development of embedded real-time software applications for flight and supporting ground systems to support the NASA Aeronautics and Space Programs. In addition, this branch evaluates, develops and implements new technologies for embedded real-time systems, and maintains a laboratory for applications of embedded technology. This branch supports other divisions and is involved with many other projects. My mentor Rochelle and I are involved in the Fluids and Combustion Facility (FCF) project, the MOBI project, and the FEANICS project. The Fluids and Combustion Facility (FCF) will occupy two powered racks on the International Space Station (ISS). It will be a permanent modular, multiuser facility to accommodate microgravity science experiments onboard the ISS's U.S. Laboratory Module. FCF will support NASA Human Exploration and Development of Space program objectives requiring sustained, systematic research in the disciplines of fluid physics and combustion science. The fluids experiment is called FIR and the combustion experiment is called CIR. The MOBI Experiment is an experiment that is performed to understand the physics of bubble segregation and resuspension in an inertia, monodisperse gas-liquid suspension, and to understand how bubble pressure resists segregation in suspensions with continuous phase inertia. The main focus of FEANICS and the solid combustion experiments will be to conduct basic and applied scientific investigations in fire-safety to support NASA's Bioastronautics Initiative. Based on data obtained in microgravity and experience gained from the beginning of the U.S. manned space program, these normal gravity flammability assessments have been assumed to be conservative with respect to flammability in all environments. However, some of the complex interactions that govern ignition and flame growth can only be evaluated in the long durations of microgravity available on the ISS. Before any of these projects actually go to the ISS, they are going to be tested on NASA's KC-135 Low-G airplane, the KC-135 Low-G Flight Research aircraft (a predecessor of the Boeing 707) is used to fly parabolas to create 20-25 seconds of weightlessness so that the astronauts can experience and researchers can investigate the effects of zero gravity. My mentor and I have been working with Labview to write the programs that are going to acquire, analyze and present the data acquired from these Test flights on the KC-135. We have been working closely with electrical, and mechanical engineers to make sure the program and the hardware can communicate and perform the operations necessary for the flight test. LabVIEW delivers a powerful graphical development environment for signal acquisition, measurement analysis, and data presentation, giving you the flexibility of a programming language without the complexity of traditional development tools. The programming of the control panel and the code are both done in GUIs which allow for flexibility in the code and the program.

  19. Branchfall as a Demographic Filter for Epiphyte Communities: Lessons from Forest Floor-Based Sampling

    PubMed Central

    Sarmento Cabral, Juliano; Petter, Gunnar; Mendieta-Leiva, Glenda; Wagner, Katrin; Zotz, Gerhard; Kreft, Holger

    2015-01-01

    Local variation in the abundance and richness of vascular epiphytes is often attributed to environmental characteristics such as substrate and microclimate. Less is known, however, about the impacts of tree and branch turnover on epiphyte communities. To address this issue, we surveyed branches and epiphytes found on the forest floor in 96 transects in two forests (Atlantic rainforest in Brazil and Caribbean rainforest in Panama). In the Brazilian forest, we additionally distinguished between edge and core study sites. We quantified branch abundance, epiphyte abundance, richness and proportion of adults to investigate the trends of these variables over branch diameter. Branches <2 cm in diameter comprised >90% of all branches on the forest floor. Abundance and richness of fallen epiphytes per transect were highest in the Brazilian core transects and lowest in the Panamanian transects. The majority of epiphytes on the floor (c. 65%) were found attached to branches. At all three study sites, branch abundance and branch diameter were negatively correlated, whereas epiphyte abundance and richness per branch, as well as the proportion of adults were positively correlated with branch diameter. The relationship between branch diameter and absolute epiphyte abundance or richness differed between study sites, which might be explained by differences in forest structure and dynamics. In the Panamanian forest, epiphytes had been previously inventoried, allowing an evaluation of our surveying method by comparing canopy and forest floor samplings. Individuals found on the forest floor corresponded to 13% of all individuals on branches <10 cm in diameter (including crowns), with abundance, richness and composition trends on forest floor reflecting canopy trends. We argue that forest floor surveys provide useful floristic and, most notably, demographic information particularly on epiphytes occurring on the thinnest branches, which are least accessible. Here, branchfall acts as an important demographic filter structuring epiphyte communities. PMID:26083417

  20. Directed branch growth in aligned nanowire arrays.

    PubMed

    Beaudry, Allan L; LaForge, Joshua M; Tucker, Ryan T; Sorge, Jason B; Adamski, Nicholas L; Li, Peng; Taschuk, Michael T; Brett, Michael J

    2014-01-01

    Branch growth is directed along two, three, or four in-plane directions in vertically aligned nanowire arrays using vapor-liquid-solid glancing angle deposition (VLS-GLAD) flux engineering. In this work, a dynamically controlled collimated vapor flux guides branch placement during the self-catalyzed epitaxial growth of branched indium tin oxide nanowire arrays. The flux is positioned to grow branches on select nanowire facets, enabling fabrication of aligned nanotree arrays with L-, T-, or X-branching. In addition, a flux motion algorithm is designed to selectively elongate branches along one in-plane axis. Nanotrees are found to be aligned across large areas by X-ray diffraction pole figure analysis and through branch length and orientation measurements collected over 140 μm(2) from scanning electron microscopy images for each array. The pathway to guided assembly of nanowire architectures with controlled interconnectivity in three-dimensions using VLS-GLAD is discussed.

  1. [Primary branch size of Pinus koraiensis plantation: a prediction based on linear mixed effect model].

    PubMed

    Dong, Ling-Bo; Liu, Zhao-Gang; Li, Feng-Ri; Jiang, Li-Chun

    2013-09-01

    By using the branch analysis data of 955 standard branches from 60 sampled trees in 12 sampling plots of Pinus koraiensis plantation in Mengjiagang Forest Farm in Heilongjiang Province of Northeast China, and based on the linear mixed-effect model theory and methods, the models for predicting branch variables, including primary branch diameter, length, and angle, were developed. Considering tree effect, the MIXED module of SAS software was used to fit the prediction models. The results indicated that the fitting precision of the models could be improved by choosing appropriate random-effect parameters and variance-covariance structure. Then, the correlation structures including complex symmetry structure (CS), first-order autoregressive structure [AR(1)], and first-order autoregressive and moving average structure [ARMA(1,1)] were added to the optimal branch size mixed-effect model. The AR(1) improved the fitting precision of branch diameter and length mixed-effect model significantly, but all the three structures didn't improve the precision of branch angle mixed-effect model. In order to describe the heteroscedasticity during building mixed-effect model, the CF1 and CF2 functions were added to the branch mixed-effect model. CF1 function improved the fitting effect of branch angle mixed model significantly, whereas CF2 function improved the fitting effect of branch diameter and length mixed model significantly. Model validation confirmed that the mixed-effect model could improve the precision of prediction, as compare to the traditional regression model for the branch size prediction of Pinus koraiensis plantation.

  2. Observation of incomplete drainage of a branched negative stepped leader system during the initial return stroke, and its implications

    NASA Astrophysics Data System (ADS)

    Petersen, D.; Beasley, W. H.

    2012-12-01

    We present high-speed video, taken at 75,000 frames per second, of an anomalous lightning flash that involved two distinct return strokes from different branches of the same branched negative stepped leader system. During the initial return stroke the leader system was incompletely drained, resulting in the continued development of a large side branch. The upper portions of this side branch exhibited a pulse of luminosity during the initial return stroke, but the luminosity did not extend down the branch. The lower portion of the branch continued to develop downward as a negative stepped leader, but at a much slower velocity. Continued stepping activity was observed in this branch as it continued downward at a significantly reduced velocity, finally attaching to the earth 1.8 milliseconds after the main return stroke. The ensuing return stroke was characterized by a slower vertical velocity and weaker luminous pulse. Based on this observation, we coin the term "orphaned branch" to describe a branch of a leader system that is not drained during a return stroke. While our case involves a branch that eventually connected to the ground and produced a return stroke, we also consider the possibility that such branches may also simply cease to progress and effectively deposit large amounts of space charge near their extremities. Such space charge would have a strong influence on subsequent breakdown activity in their vicinity, such as shielding subsequent descending negative stepped leaders or triggering upward positive leaders from earth's surface.

  3. Effects of branch height on leaf gas exchange, branch hydraulic conductance and branch sap flux in open-grown ponderosa pine.

    PubMed

    Hubbard, Robert M; Bond, Barbara J; Senock, Randy S; Ryan, Michael G

    2002-06-01

    Recent studies have shown that stomata respond to changes in hydraulic conductance of the flow path from soil to leaf. In open-grown tall trees, branches of different heights may have different hydraulic conductances because of differences in path length and growth. We determined if leaf gas exchange, branch sap flux, leaf specific hydraulic conductance, foliar carbon isotope composition (delta13C) and ratios of leaf area to sapwood area within branches were dependent on branch height (10 and 25 m) within the crowns of four open-grown ponderosa pine (Pinus ponderosa Laws.) trees. We found no difference in leaf gas exchange or leaf specific hydraulic conductance from soil to leaf between the upper and lower canopy of our study trees. Branch sap flux per unit leaf area and per unit sapwood area did not differ between the 10- and 25-m canopy positions; however, branch sap flux per unit sapwood area at the 25-m position had consistently lower values. Branches at the 25-m canopy position had lower leaf to sapwood area ratios (0.17 m2 cm-2) compared with branches at the 10-m position (0.27 m2 cm-2) (P = 0.03). Leaf specific conductance of branches in the upper crown did not differ from that in the lower crown. Other studies at our site indicate lower hydraulic conductance, sap flux, whole-tree canopy conductance and photosynthesis in old trees compared with young trees. This study suggests that height alone may not explain these differences.

  4. Branching, Superdiffusion and Stress Relaxation in Surfactant Micelles

    NASA Astrophysics Data System (ADS)

    Sureshkumar, R.; Dhakal, S.; Syracuse University Team

    2016-11-01

    We investigate the mechanism of branch formation and its effects on the dynamics and rheology of a model cationic micellar fluid using molecular dynamics (MD) simulations. Branched structures are formed upon increasing counter ion density. A sharp decrease in the solution viscosity with increasing salinity has long been attributed to the sliding motion of micellar branches along the main chain. Simulations not only provide firm evidence of branch sliding in real time, but also show enhanced diffusion of surfactants by virtue of such motion. Insights into the mechanism of stress relaxation associated with branch sliding will be discussed. Specifically, an externally imposed stress damps out more quickly in a branched system compared to that in an unbranched one. NSF Grants 1049489, 1049454.

  5. 76 FR 46715 - Proposed Flood Elevation Determinations

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-08-03

    ... table provided here represents the flooding sources, location of referenced elevations, effective and.... Specifically, it addresses the following flooding sources: Cabin Branch, Franklin Branch, Hall Creek, Little... Incorporated Areas'' addressed the following flooding sources: Cabin Branch, Franklin Branch, Little Patuxent...

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

    Lazzaro, Alfio

    Note that the main goal of this thesis work is the measurement of the branching fractions, charge asymmetry, and Time-Dependent CP Violation in η'K 0 mode. All other measurements are reported here for completion because they are connected by similar physics arguments. They are part of the Milan analysis activity, done by undergraduate students. They should not be considered as done in this thesis work. The measurements of the two body-modes ηη, ηΦ, and η'Φare used to determine a theoretical bound based on SU(3) flavor symmetry for the difference between SM prediction and the experimental measurements of CP violation parametersmore » in b → s loop-dominated modes. In general for this estimation we need to measure the branching fractions (or upper limits) of neutral B decays to two-body modes with η', η, Φ, ω, π 0, K 0, K* 0 [13, 14, 15, 16]. There is an important issue related to the branching fractions of η'K (charged and neutral) modes. Since the discover of B → η'K in 1997 [17] with high branching fraction (higher than expected), it was found that the corresponding mode with η is suppressed. This fact was pointed out by Lipkin in 1991 [18]. In particular, using arguments concerning the η-η' mixing angle and the parity of K or K* we can say that η'K and vK* are enhanced, while ηK and η'K* are suppressed. This scheme is experimentally verified. The branching fraction of all these modes are already measured, but the B 0 → ηK 0. So it is important to measure also this mode to complete the scenario. Finally we report on the measurements of the radiative modes B → η'Kγ and of the three-body mode B → η'η'K. Both cases are good candidates to manifest effects due to NP in CP violations [19, 20]. For all measurements we use an unbinned maximum likelihood fit to extract the number of signal yields and CP parameters. To perform these fits we have developed a flexible program in C++ language, called MiFit, which has taken a consistent part of the work described in this thesis. This program is used in all Milan analyses. All these measurements have been presented in conferences and published in Physical Review Letters or Physics Review D (Rapid Communication). These measurements are official BABAR results, approved by the Collaboration. The thesis is structured in eight chapters. In the first chapter we describe the CP violation and how it is explained in the SM. We give the theoretical description of the modes studied in this thesis. We report also the latest main results for the CP violation. In the second chapter we describe the BABAR detector with a description of each sub-detector. In the third chapter we describe the software used by the collaboration, in particular the code used in the events reconstruction, which is described in the fourth chapter. In the fifth chapter we describe the software used to selected the events and the MiFit program. After that, in the sixth chapter we show the discriminating variables used for the events selection and how the selection is done. In the last two chapters we report the analyses and results of the branching fractions and charge asymmetries measurements and the time-dependent CP asymmetries analysis of the mode B 0 → η'K 0, respectively.« less

  7. Complete genome sequence of Dehalogenimonas lykanthroporepellens type strain (BL-DC-9T) and comparison to Dehalococcoides strains

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

    Siddaramappa, Shivakumara; Delano, Susana; Green, Lance D.

    2012-01-01

    Dehalogenimonas lykanthroporepellens is the type species of the genus Dehalogenimonas, which belongs to a deeply branching lineage within the phylum Chloroflexi. This strictly anaerobic, mesophilic, non spore forming, Gram negative staining bacterium was first isolated from chlorinated solvent contaminated groundwater at a Superfund site located near Baton Rouge, Louisiana, USA. D. lykanthroporepellens was of interest for genome sequencing for two reasons: (a) its unusual ability to couple growth with reductive dechlorination of environmentally important polychlorinated aliphatic alkanes and (b) its phylogenetic position distant from previously sequenced bacteria. The 1,686,510 bp circular chromosome of strain BL-DC-9{sup T} contains 1,720 predicted proteinmore » coding genes, 47 tRNA genes, a single large subunit rRNA (23S-5S) locus, and a single, orphan, small unit rRNA (16S) locus.« less

  8. Time-resolved Spectroscopy and Multi-color Photometry Of The Pulsating and Short-period Binary Subdwarf B Star Feige 48

    NASA Astrophysics Data System (ADS)

    Reed, Mike; Baran, A.; O'Toole, S.

    2012-05-01

    Pulsating subdwarf B (sdB) stars can be used as probes of the helium fusing cores of horizontal branch stars. To probe these stars, asteroseismology must be able to observationally associate pulsation frequencies with modes. Time-resolved spectroscopy and multicolor photometry have been employed with mixed results for short-period pulsating sdB stars. Time-resolved spectroscopy has successfully measured radial velocity, temperature, and gravity variations in six pulsators, yet interpreting results is far from straightforward. Multicolor photometry requires extremely high precision to discern between low-degree modes, yet has been used effectively to eliminate high-degree modes. Combining RV and multicolor measurements has also been shows as an effective means of constraining mode identifications. I will present results for Feige 48 using both time-resolved spectroscopy and multicolor photometry and attempts to constrain their pulsation modes using the atmospheric codes BRUCE and KYLIE.

  9. Insight into the evolution of microbial metabolism from the deep-branching bacterium, Thermovibrio ammonificans.

    PubMed

    Giovannelli, Donato; Sievert, Stefan M; Hügler, Michael; Markert, Stephanie; Becher, Dörte; Schweder, Thomas; Vetriani, Costantino

    2017-04-24

    Anaerobic thermophiles inhabit relic environments that resemble the early Earth. However, the lineage of these modern organisms co-evolved with our planet. Hence, these organisms carry both ancestral and acquired genes and serve as models to reconstruct early metabolism. Based on comparative genomic and proteomic analyses, we identified two distinct groups of genes in Thermovibrio ammonificans : the first codes for enzymes that do not require oxygen and use substrates of geothermal origin; the second appears to be a more recent acquisition, and may reflect adaptations to cope with the rise of oxygen on Earth. We propose that the ancestor of the Aquificae was originally a hydrogen oxidizing, sulfur reducing bacterium that used a hybrid pathway for CO 2 fixation. With the gradual rise of oxygen in the atmosphere, more efficient terminal electron acceptors became available and this lineage acquired genes that increased its metabolic flexibility while retaining ancestral metabolic traits.

  10. Space Sciences Laboratory Publications and Presentations: January 1 - December 31,1998

    NASA Technical Reports Server (NTRS)

    Summers, F. G. (Compiler)

    1999-01-01

    This document lists the significant publications and presentations of the Space Sciences Laboratory during the period January 1 - December 31, 1998. Entries in the main part of the document are categorized according to NASA Reports (arranged by report number), Open Literature, and Presentations (arranged alphabetically by title). Most of the articles listed under Open Literature have appeared in refereed professional journals, books, monographs, or conference proceedings. Although many published abstracts are eventually expanded into full papers for publication in scientific and technical journals, they are often sufficiently comprehensive to include the significant results of the research reported. Therefore, published abstracts are listed separately in a subsection under Open Literature. Questions or requests for additional information about the entries in this report should be directed to Gregory S. Wilson (ES01; 544-7579) or to one of the authors. The organizational code of the cognizant SSL branch or office is given at the end of each entry.

  11. Complete genome sequence of Intrasporangium calvum type strain (7 KIPT)

    PubMed Central

    Del Rio, Tijana Glavina; Chertkov, Olga; Yasawong, Montri; Lucas, Susan; Deshpande, Shweta; Cheng, Jan-Fang; Detter, Chris; Tapia, Roxanne; Han, Cliff; Goodwin, Lynne; Pitluck, Sam; Liolios, Konstantinos; Ivanova, Natalia; Mavromatis, Konstantinos; Pati, Amrita; Chen, Amy; Palaniappan, Krishna; Land, Miriam; Hauser, Loren; Chang, Yun-Juan; Jeffries, Cynthia D.; Rohde, Manfred; Pukall, Rüdiger; Sikorski, Johannes; Göker, Markus; Woyke, Tanja; Bristow, James; Eisen, Jonathan A.; Markowitz, Victor; Hugenholtz, Philip; Kyrpides, Nikos C.; Klenk, Hans-Peter; Lapidus, Alla

    2010-01-01

    Intrasporangium calvum Kalakoutskii et al. 1967 is the type species of the genus Intrasporangium, which belongs to the actinobacterial family Intrasporangiaceae. The species is a Gram-positive bacterium that forms a branching mycelium, which tends to break into irregular fragments. The mycelium of this strain may bear intercalary vesicles but does not contain spores. The strain described in this study is an airborne organism that was isolated from a school dining room in 1967. One particularly interesting feature of I. calvum is that the type of its menaquinone is different from all other representatives of the family Intrasporangiaceae. This is the first completed genome sequence from a member of the genus Intrasporangium and also the first sequence from the family Intrasporangiaceae. The 4,024,382 bp long genome with its 3,653 protein-coding and 57 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project. PMID:21304734

  12. Polarization and studies of evolved star mass loss

    NASA Astrophysics Data System (ADS)

    Sargent, Benjamin; Srinivasan, Sundar; Riebel, David; Meixner, Margaret

    2012-05-01

    Polarization studies of astronomical dust have proven very useful in constraining its properties. Such studies are used to constrain the spatial arrangement, shape, composition, and optical properties of astronomical dust grains. Here we explore possible connections between astronomical polarization observations to our studies of mass loss from evolved stars. We are studying evolved star mass loss in the Large Magellanic Cloud (LMC) by using photometry from the Surveying the Agents of a Galaxy's Evolution (SAGE; PI: M. Meixner) Spitzer Space Telescope Legacy program. We use the radiative transfer program 2Dust to create our Grid of Red supergiant and Asymptotic giant branch ModelS (GRAMS), in order to model this mass loss. To model emission of polarized light from evolved stars, however, we appeal to other radiative transfer codes. We probe how polarization observations might be used to constrain the dust shell and dust grain properties of the samples of evolved stars we are studying.

  13. Frequency-comb-assisted precision laser spectroscopy of CHF{sub 3} around 8.6 μm

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

    Gambetta, Alessio; Coluccelli, Nicola; Cassinerio, Marco

    2015-12-21

    We report a high-precision spectroscopic study of room-temperature trifluoromethane around 8.6 μm, using a CW quantum cascade laser phase-locked to a mid-infrared optical frequency comb. This latter is generated by a nonlinear down-conversion process starting from a dual-branch Er:fiber laser and is stabilized against a GPS-disciplined rubidium clock. By tuning the comb repetition frequency, several transitions falling in the υ{sub 5} vibrational band are recorded with a frequency resolution of 20 kHz. Due to the very dense spectra, a special multiple-line fitting code, involving a Voigt profile, is developed for data analysis. The combination of the adopted experimental approach andmore » survey procedure leads to fractional accuracy levels in the determination of line center frequencies, down to 2 × 10{sup −10}. Line intensity factors, pressure broadening, and shifting parameters are also provided.« less

  14. Fungal biodiversity to biotechnology.

    PubMed

    Chambergo, Felipe S; Valencia, Estela Y

    2016-03-01

    Fungal habitats include soil, water, and extreme environments. With around 100,000 fungus species already described, it is estimated that 5.1 million fungus species exist on our planet, making fungi one of the largest and most diverse kingdoms of eukaryotes. Fungi show remarkable metabolic features due to a sophisticated genomic network and are important for the production of biotechnological compounds that greatly impact our society in many ways. In this review, we present the current state of knowledge on fungal biodiversity, with special emphasis on filamentous fungi and the most recent discoveries in the field of identification and production of biotechnological compounds. More than 250 fungus species have been studied to produce these biotechnological compounds. This review focuses on three of the branches generally accepted in biotechnological applications, which have been identified by a color code: red, green, and white for pharmaceutical, agricultural, and industrial biotechnology, respectively. We also discuss future prospects for the use of filamentous fungi in biotechnology application.

  15. A Step Made Toward Designing Microelectromechanical System (MEMS) Structures With High Reliability

    NASA Technical Reports Server (NTRS)

    Nemeth, Noel N.

    2003-01-01

    The mechanical design of microelectromechanical systems-particularly for micropower generation applications-requires the ability to predict the strength capacity of load-carrying components over the service life of the device. These microdevices, which typically are made of brittle materials such as polysilicon, show wide scatter (stochastic behavior) in strength as well as a different average strength for different sized structures (size effect). These behaviors necessitate either costly and time-consuming trial-and-error designs or, more efficiently, the development of a probabilistic design methodology for MEMS. Over the years, the NASA Glenn Research Center s Life Prediction Branch has developed the CARES/Life probabilistic design methodology to predict the reliability of advanced ceramic components. In this study, done in collaboration with Johns Hopkins University, the ability of the CARES/Life code to predict the reliability of polysilicon microsized structures with stress concentrations is successfully demonstrated.

  16. Analysis of interface crack branching

    NASA Technical Reports Server (NTRS)

    Ballarini, R.; Mukai, D. J.; Miller, G. R.

    1989-01-01

    A solution is presented for the problem of a finite length crack branching off the interface between two bonded dissimilar isotropic materials. Results are presented in terms of the ratio of the energy release rate of a branched interface crack to the energy release rate of a straight interface crack with the same total length. It is found that this ratio reaches a maximum when the interface crack branches into the softer material. Longer branches tend to have smaller maximum energy release rate ratio angles indicating that all else being equal, a branch crack will tend to turn back parallel to the interface as it grows.

  17. Evaluation of the precipitation-runoff modeling system, Beaver Creek basin, Kentucky

    USGS Publications Warehouse

    Bower, D.E.

    1985-01-01

    The Precipitation Runoff Modeling System (PRMS) was evaluated with data from Cane branch and Helton Branch in the Beaver Creek basin of Kentucky. Because of previous studies, 10.6 years of record were available to establish a data base for the basin including 60 storms for Cane Branch and 50 storms for Helton Branch. The model was calibrated initially using data from the 1956-58 water years. Runoff predicted by the model was 94.7% of the observed runoff at Cane Branch (mined area) and 96.9% at Helton Branch (unmined area). After the model and data base were modified, the model was refitted to the 1956-58 data for Helton Branch. It then predicted 98.6% of the runoff for the 10.6-year period. The model parameters from Helton Branch were then used to simulate the Cane Branch runoff and discharge. The model predicted 102.6% of the observed runoff at Cane Branch for the 10.6 years. The simulations produced reasonable storm volumes and peak discharges. Sensitivity analysis of model parameters indicated the parameters associated with soil moisture are the most sensitive. The model was used to predict sediment concentration and daily sediment load for selected storm periods. The sediment computations indicated the model can be used to predict sediment concentrations during storm events. (USGS)

  18. The sensory but not muscular pelvic nerve branch is necessary for parturition in the rat.

    PubMed

    Martínez-Gómez, M; Cruz, Y; Pacheco, P; Aguilar-Roblero, R; Hudson, R

    1998-03-01

    In the rat the pelvic nerve consists of a viscerocutaneous (sensory) branch which receives information from pelvic viscera and the midline perineal region, and a somatomotor (muscular) branch which innervates the ilio- and pubococcygeous muscles. To investigate the contribution of these branches to the parturition process, the length of gestation and course of delivery were closely monitored in 43 pregnant, Wistar-strain rats randomly assigned to five groups: untreated control animals, animals in which the somatomotor branch of the pelvic nerve was bilaterally sectioned on Day 14 of gestation, animals in which the viscerocutaneous branch of the pelvic nerve was bilaterally sectioned on Day 14 of gestation, animals treated similarly to the previous group but with young delivered by C-section at term, and sham-operated controls. Sectioning the viscerocutaneous branch seriously disrupted parturition and resulted in major dystocia and a high percentage of stillbirths in all females. In contrast, sectioning the somatomotor branch had no apparent effect on parturition and no significant differences were found between females of this group and sham or control dams on any of the measures recorded. It is concluded that the viscerocutaneous branch of the pelvic nerve is vital for the normal course of parturition in the rat but that the somatomotor branch plays little role, if any.

  19. Motor fiber organization in the extratemporal trunk of the facial nerve in rats: A retrograde Fluoro-Gold study

    PubMed Central

    CHEN, LIJIE; HU, MIN; ZHANG, LIHAI; LIU, SANXIA; LUO, JINCHAO; DENG, TIANZHENG; TAO, YE

    2012-01-01

    Understanding the microanatomy of the facial nerve is vital to functional restoration of facial nerve injury. This study aimed to locate the spatial orientation of five branches in the extratemporal trunk of the rat facial nerve (ETFN). Fifteen adult Sprague-Dawley albino rats were divided randomly into five groups corresponding to the five facial nerves. Fluoro-Gold™ (FG) was applied to one branch in all three rats in each group. The trunk of the facial nerve was cut at three points for fluorescence detection. Staining results showed that each branch of the facial motor nerve had a topographical orientation in the distal part of the ETFN. The temporal branch was located in the medial and acroscopic quadrant of the nerve trunk. The zygomatic branch was located in the lateral and acroscopic quadrant. The buccal branch occupied the upper half of the nerve trunk, whereas the mandibular branch occupied the lower half. The cervical branch presented a square-shaped distribution in the lateral nerve trunk. In the middle part of the ETFN, the topographical orientation remained clear, but the FG-labeled zone was extended to some extent. In the stylomastoid foramen region, all branches diffused, thereby blurring the orientation. In conclusion, each branch of the facial motor nerve had a topographical orientation and distribution in the crotch and middle part of the ETFN, but the branches diffused near the stylomastoid foramen. PMID:23226737

  20. New Concepts in Electromagnetic Materials and Antennas

    DTIC Science & Technology

    2015-01-01

    Bae-Ian Wu Antennas & Electromagnetics Technology Branch Multispectral Sensing & Detection Division JANUARY 2015 Final Report...Signature// //Signature// BRADLEY A. KRAMER, Program Manager TONY C. KIM, Branch Chief Antenna & Electromagnetic Technology ...Branch Antenna & Electromagnetic Technology Branch Multispectral Sensing & Detection Division Multispectral Sensing & Detection Division

  1. Vegetation survey of PEN Branch wetlands

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

    Not Available

    A survey was conducted of vegetation along Pen Branch Creek at Savannah River Site (SRS) in support of K-Reactor restart. Plants were identified to species by overstory, understory, shrub, and groundcover strata. Abundance was also characterized and richness and diversity calculated. Based on woody species basal area, the Pen Branch delta was the most impacted, followed by the sections between the reactor and the delta. Species richness for shrub and groundcover strata were also lowest in the delta. No endangered plant species were found. Three upland pine areas were also sampled. In support of K Reactor restart, this report summarizesmore » a study of the wetland vegetation along Pen Branch. Reactor effluent enters Indian Grove Branch and then flows into Pen Branch and the Pen Branch Delta.« less

  2. Vegetation survey of PEN Branch wetlands

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

    Not Available

    1991-01-01

    A survey was conducted of vegetation along Pen Branch Creek at Savannah River Site (SRS) in support of K-Reactor restart. Plants were identified to species by overstory, understory, shrub, and groundcover strata. Abundance was also characterized and richness and diversity calculated. Based on woody species basal area, the Pen Branch delta was the most impacted, followed by the sections between the reactor and the delta. Species richness for shrub and groundcover strata were also lowest in the delta. No endangered plant species were found. Three upland pine areas were also sampled. In support of K Reactor restart, this report summarizesmore » a study of the wetland vegetation along Pen Branch. Reactor effluent enters Indian Grove Branch and then flows into Pen Branch and the Pen Branch Delta.« less

  3. Posterior Branches of Lumbar Spinal Nerves - Part I: Anatomy and Functional Importance.

    PubMed

    Kozera, Katarzyna; Ciszek, Bogdan

    2016-01-01

    The aim of this paper is to compare anatomic descriptions of posterior branches of the lumbar spinal nerves and, on this basis, present the location of these structures. The majority of anatomy textbooks do not describe these nerves in detail, which may be attributable to the fact that for many years they were regarded as structures of minor clinical importance. The state of knowledge on these nerves has changed within the last 30 years. Attention has been turned to their function and importance for both diagnostic practice and therapy of lower back pain. Summarising the available literature, we may conclude that the medial and lateral branches separate at the junction of the facet joint and the distal upper edge of the transverse process; that the size, course and area supplied differ between the lateral and the medial branch; and that facet joints receive multisegmental innervation. It has been demonstrated that medial branches are smaller than the respective lateral branches and they have a more constant course. Medial branches supply the area from the midline to the facet joint line, while lateral branches innervate tissues lateral to the facet joint. The literature indicates difficulties with determining specific anatomic landmarks relative to which the lateral branch and the distal medial branch can be precisely located. Irritation of sensory fibres within posterior branches of the lumbar spinal nerves may be caused by pathology of facet joints, deformity of the spine or abnormalities due to overloading or injury. The anatomic location and course of posterior branches of spinal nerves should be borne in mind to prevent damaging them during low-invasive analgesic procedures.

  4. Pulmonary Artery Sealing With an Ultrasonic Energy Device in Video-Assisted Thoracoscopic Surgery Lobectomy: An Animal Survival Study.

    PubMed

    Goudie, Eric; Khereba, Mohamed; Tahiri, Mehdi; Hegde, Pravachan; Thiffault, Vicky; Hadjeres, Rachid; Berdugo, Jérémie; Ferraro, Pasquale; Liberman, Moishe

    2016-10-01

    Pulmonary artery (PA) sealing in video-assisted thoracoscopic surgery (VATS) lobectomy is typically accomplished using vascular endostaplers. Endostaplers may be associated with iatrogenic PA branch injury, especially in short, small PA branches. We evaluated PA branch sealing with the HARMONIC ACE +7 (ACE) shears (Ethicon, Cincinnati, OH) in VATS lobectomy in a canine survival model. Ten adult dogs underwent VATS lobectomy. Standard VATS lobectomy operative technique was used for the entire operation, except for PA branch sealing. The ACE was used for all PA branch sealing. Dogs were kept alive for 30 days. The 10 dogs underwent VATS right upper (n = 5) and right lower (n = 5) lobectomy. The ACE was used to seal 21 PA branches. No PA branch was divided with an endostapler. There were no intraoperative complications or conversions to thoracotomy. Mean in vivo PA diameter was 5.6 mm (range, 2 to 12 mm). One 10-mm PA branch had a partial seal failure immediately at the time of sealing. The device was reapplied on the stump, and the PA branch was successfully sealed. All dogs survived 30 days without hemothorax. Necropsy at 30 days did not reveal any signs of postoperative bleeding. Pathology of the sealed PA branches at 30 days revealed fibrosis, giant cell reaction, neovascularization, and thermal changes of the vessel wall. The use of the ACE for PA branch sealing in VATS lobectomy is safe and effective in an animal survival model. Human studies are needed to determine the clinical safety of ultrasonic PA branch sealing before widespread clinical use. Copyright © 2016 The Society of Thoracic Surgeons. Published by Elsevier Inc. All rights reserved.

  5. Some posterior branches of extralaryngeal recurrent laryngeal nerves have motor fibers.

    PubMed

    Cho, Ilyoung; Jo, Min-Gyu; Choi, Sung-Won; Jang, Jeon Yeob; Wang, Soo-Geun; Cha, Wonjae

    2017-11-01

    Anatomical variations of the recurrent laryngeal nerve (RLN), such as extralaryngeal branching, are a well-known risk factor for RLN injury during thyroid surgery. This study aimed to analyze the surgical anatomy and to investigate the existence of posterior branch motor fibers of extralaryngeal RLNs. Prospective consecutive observational study. This was a prospective cohort study of 366 patients between January 2014 and February 2016. Operative data included the type of operation, incidence of nerve bifurcation, the distances among anatomical landmarks. The motor fibers were evaluated using neurostimulation with laryngeal palpation. A total of 667 RLNs at risk were analyzed in this study, and of these 103 (14.5%) nerves were bifurcated or trifurcated before the laryngeal entry point (LEP). More extralaryngeal branched RLNs were observed on the right side than on the left (17.5% vs. 13.3%, P = .294). The mean distance of the LEP point of division was longer on the left side (16.2 ± 6.7 mm) than on the right (14.7 ± 5.9 mm, P = .132). All branched RLNs had a palpable laryngeal twitch when stimulating anterior branches. When stimulating posterior branches, 28.2%(29/103) of branched RLNs showed palpable laryngeal twitch. Overall incidence of posterior motor branch in total RLNs was 4.3% (29/667). The motor fibers of the RLN are all located in the anterior branch, whereas some posterior branches have motor function. Identification of all of the branches of the RLN may be mandatory to decrease the risk of postoperative nerve injury. 4. Laryngoscope, 127:2678-2685, 2017. © 2017 The American Laryngological, Rhinological and Otological Society, Inc.

  6. The Office of the Materials Division

    NASA Technical Reports Server (NTRS)

    Ramsey, amanda J.

    2004-01-01

    I was assigned to the Materials Division, which consists of the following branches; the Advanced Metallics Branch/5120-RMM, Ceramics Branch/5130-RMC, Polymers Branch/5150-RMP, and the Durability and Protective Coatings Branch/5160-RMD. Mrs. Pamela Spinosi is my assigned mentor. She was assisted by Ms.Raysa Rodriguez/5100-RM and Mrs.Denise Prestien/5100-RM, who are both employed by InDyne, Inc. My primary assignment this past summer was working directly with Ms. Rodriguez, assisting her with setting up the Integrated Financial Management Program (IFMP) 5130-RMC/Branch procedures and logs. These duties consisted of creating various spreadsheets for each individual branch member, which were updated daily. It was not hard to familiarize myself with these duties since this is my second summer working with Ms Rodriguez at NASA Glenn Research Center. RMC ordering laboratory, supplies and equipment for the Basic Materials Laboratory (Building 106) using the IF'MP/Purchase Card (P-card), a NASA-wide software program. I entered into the IFMP/Travel and Requisitions System, new Travel Authorizations for the 5130-RMC Civil Servant Branch Members. I also entered and completed Travel Vouchers for the 5130-RMC Ceramics Branch. I assisted in the Division Office creating new Emergency Contact list for the Materials Division. I worked with Dr. Hugh Gray, the Division Chief, and Dr. Ajay Misra, the 5130-RMC Branch Chief, on priority action items, with a close deadline, for a large NASA Proposal. Another project was working closely with Ms. Rodriguez in organizing and preparing for Dr. Ajay K. Misra's SESCDP (two year detail). This consisted of organizing files, file folders, personal information, and recording all data material onto CD's and printing all presentations for display in binders. I attended numerous Branch meetings, and observed many changes in the Branch Management organization.

  7. The first perforating branch of the deep femoral artery: A reliable recipient vessel for vascularized fibular grafts: An anatomical study.

    PubMed

    Sur, Yoo Joon; Morsy, Mohamed; Mohan, Anita T; Zhu, Lin; Lachman, Nirusha; Saint-Cyr, Michel

    2016-03-01

    Although the perforating branches of the deep femoral artery have been introduced as recipient vessels for vascularized fibular grafts in the treatment of osteonecrosis of the femoral head, comprehensive knowledge of the related anatomy is deficient. The aims of this study were to provide detailed anatomical data for the perforating branches of the deep femoral artery and validate their usefulness as recipient vessels for vascularized fibular grafts. Anatomical dissection was performed on 11 fresh human cadaveric lower extremities. The number, locations, and diameters of the perforating branches were documented. The topographic relationships with the vastus ridge and the tendinous insertion of the gluteus maximus were clarified. The diameters of the perforating branches were compared with those of the ascending branch of the lateral circumflex femoral and the peroneal arteries. The mean number of perforating branches was 3.5. The mean distances from the vastus ridge to the first, second, and third perforating branches were 8.1, 13.7, and 20.4 cm, respectively. The first perforating branch was always located medial to the tendinous insertion of the gluteus maximus, whereas the second perforating branch was always located distal to the gluteus maximus. The mean diameters of the first, second, third, and fourth perforating branches were 3.1, 2.3, 1.6, and 1.2 mm, respectively. The mean diameters of the ascending branch of the lateral circumflex femoral and the peroneal arteries were 2.0 and 3.6 mm, respectively. The first perforating branch of the deep femoral artery is an appropriate alternative recipient vessel for vascularized fibular grafts in the treatment of osteonecrosis of the femoral head. It has a very consistent anatomy with a suitable location and diameter for anastomosis of the peroneal artery. Copyright © 2015 British Association of Plastic, Reconstructive and Aesthetic Surgeons. Published by Elsevier Ltd. All rights reserved.

  8. Herbivore-induced volatiles in the perennial shrub, Vaccinium corymbosum, and their role in inter-branch signaling.

    PubMed

    Rodriguez-Saona, Cesar R; Rodriguez-Saona, Luis E; Frost, Christopher J

    2009-02-01

    Herbivore feeding activates plant defenses at the site of damage as well as systemically. Systemic defenses can be induced internally by signals transported via phloem or xylem, or externally transmitted by volatiles emitted from the damaged tissues. We investigated the role of herbivore-induced plant volatiles (HIPVs) in activating a defense response between branches in blueberry plants. Blueberries are perennial shrubs that grow by initiating adventitious shoots from a basal crown, which produce new lateral branches. This type of growth constrains vascular connections between shoots and branches within plants. While we found that leaves within a branch were highly connected, vascular connectivity was limited between branches within shoots and absent between branches from different shoots. Larval feeding by gypsy moth, exogenous methyl jasmonate, and mechanical damage differentially induced volatile emissions in blueberry plants, and there was a positive correlation between amount of insect damage and volatile emission rates. Herbivore damage did not affect systemic defense induction when we isolated systemic branches from external exposure to HIPVs. Thus, internal signals were not capable of triggering systemic defenses among branches. However, exposure of branches to HIPVs from an adjacent branch decreased larval consumption by 70% compared to those exposed to volatiles from undamaged branches. This reduction in leaf consumption did not result in decreased volatile emissions, indicating that leaves became more responsive to herbivory (or "primed") after being exposed to HIPVs. Chemical profiles of leaves damaged by gypsy moth caterpillars, exposed to HIPVs, or non-damaged controls revealed that HIPV-exposed leaves had greater chemical similarities to damaged leaves than to control leaves. Insect-damaged leaves and young HIPV-exposed leaves had higher amounts of endogenous cis-jasmonic acid compared to undamaged and non-exposed leaves, respectively. Our results show that exposure to HIPVs triggered systemic induction of direct defenses against gypsy moth and primed volatile emissions, which can be an indirect defense. Blueberry plants appear to rely on HIPVs as external signals for inter-branch communication.

  9. 78 FR 22221 - Proposed Flood Elevation Determinations

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-04-15

    ... table provided here represents the flooding sources, location of referenced elevations, effective and.... Specifically, it addresses the following flooding sources: Pea Branch and Reedy Branch. DATES: Comments are to... Areas'' did not address the flooding sources Pea Branch and Reedy Branch. That table omitted information...

  10. 47 CFR 32.6341 - Large private branch exchange expense.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 47 Telecommunication 2 2010-10-01 2010-10-01 false Large private branch exchange expense. 32.6341... Large private branch exchange expense. This account shall include expenses associated with large private branch exchanges. Expenses associated with company internal use communication equipment shall be recorded...

  11. Structural dynamics branch research and accomplishments

    NASA Technical Reports Server (NTRS)

    1990-01-01

    Summaries are presented of fiscal year 1989 research highlights from the Structural Dynamics Branch at NASA Lewis Research Center. Highlights from the branch's major work areas include aeroelasticity, vibration control, dynamic systems, and computation structural methods. A listing of the fiscal year 1989 branch publications is given.

  12. [Effects of Loquat-Branch Dust Substitution on Ganoderma lucidum Cultivation in Its Main Active Components].

    PubMed

    Zhang, Ping; Chen, Feng; Lai, Teng-qiang; Jin, Ling-yun; Li, Ye

    2015-12-01

    To select the best Ganoderma lucidum cultivation medium of replacing sawdust into loquat-branch dust, in order to realize high output and high quality production of Ganoderma lucidum. Loquat-branch dust was added as substitution in Ganoderma lucidum cultivation, its effects on the biomass and the content of Ganoderma polysaccharides, triterpenoids and flavonoids were analyzed. By using loquat-branch dust in culture, Ganoderma lucidum grew well with normal fruiting body obtained and spores released. Compared with control group, the biological efficiency was increased by 11.34%, when the addition of the loquat-branch dust was 80%, while the amount of spore had little difference. When the addition of the loquat-branch dust was 90%, the content of Ganoderma polysaccharides and triterpenoids was increased by 32.29% and 30.58% respectively, while the efficiency of flavonoids had little difference. Using loquat-branch dust cultivation can improve the quality of Ganoderma lucidum. According to the comprehensive score, 80% loquat-branch dust is the most suitable cultivation medium.

  13. Branch and foliage morphological plasticity in old-growth Thuja plicata.

    PubMed

    Edelstein, Zoe R; Ford, E David

    2003-07-01

    At the Wind River Canopy Crane Facility in southeastern Washington State, USA, we examined phenotypic variation between upper- and lower-canopy branches of old-growth Thuja plicata J. Donn ex D. Don (western red cedar). Lower-canopy branches were longer, sprouted fewer daughter branches per unit stem length and were more horizontal than upper-canopy branches. Thuja plicata holds its foliage in fronds, and these had less projected area per unit mass, measured by specific frond area, and less overlap, measured by silhouette to projected area ratio (SPARmax), in the lower canopy than in the upper canopy. The value of SPARmax, used as an indicator of sun and shade foliage in needle-bearing species, did not differ greatly between upper- and lower-canopy branches. We suggest that branching patterns, as well as frond structure, are important components of morphological plasticity in T. plicata. Our results imply that branches of old-growth T. plicata trees have a guerilla growth pattern, responding to changes in solar irradiance in a localized manner.

  14. Regulation of branching dynamics by axon-intrinsic asymmetries in Tyrosine Kinase Receptor signaling

    PubMed Central

    Zschätzsch, Marlen; Oliva, Carlos; Langen, Marion; De Geest, Natalie; Özel, Mehmet Neset; Williamson, W Ryan; Lemon, William C; Soldano, Alessia; Munck, Sebastian; Hiesinger, P Robin; Sanchez-Soriano, Natalia; Hassan, Bassem A

    2014-01-01

    Axonal branching allows a neuron to connect to several targets, increasing neuronal circuit complexity. While axonal branching is well described, the mechanisms that control it remain largely unknown. We find that in the Drosophila CNS branches develop through a process of excessive growth followed by pruning. In vivo high-resolution live imaging of developing brains as well as loss and gain of function experiments show that activation of Epidermal Growth Factor Receptor (EGFR) is necessary for branch dynamics and the final branching pattern. Live imaging also reveals that intrinsic asymmetry in EGFR localization regulates the balance between dynamic and static filopodia. Elimination of signaling asymmetry by either loss or gain of EGFR function results in reduced dynamics leading to excessive branch formation. In summary, we propose that the dynamic process of axon branch development is mediated by differential local distribution of signaling receptors. DOI: http://dx.doi.org/10.7554/eLife.01699.001 PMID:24755286

  15. Stellar models with calibrated convection and temperature stratification from 3D hydrodynamics simulations

    NASA Astrophysics Data System (ADS)

    Mosumgaard, Jakob Rørsted; Ball, Warrick H.; Aguirre, Víctor Silva; Weiss, Achim; Christensen-Dalsgaard, Jørgen

    2018-06-01

    Stellar evolution codes play a major role in present-day astrophysics, yet they share common simplifications related to the outer layers of stars. We seek to improve on this by the use of results from realistic and highly detailed 3D hydrodynamics simulations of stellar convection. We implement a temperature stratification extracted directly from the 3D simulations into two stellar evolution codes to replace the simplified atmosphere normally used. Our implementation also contains a non-constant mixing-length parameter, which varies as a function of the stellar surface gravity and temperature - also derived from the 3D simulations. We give a detailed account of our fully consistent implementation and compare to earlier works, and also provide a freely available MESA-module. The evolution of low-mass stars with different masses is investigated, and we present for the first time an asteroseismic analysis of a standard solar model utilising calibrated convection and temperature stratification from 3D simulations. We show that the inclusion of 3D results have an almost insignificant impact on the evolution and structure of stellar models - the largest effect are changes in effective temperature of order 30 K seen in the pre-main sequence and in the red-giant branch. However, this work provides the first step for producing self-consistent evolutionary calculations using fully incorporated 3D atmospheres from on-the-fly interpolation in grids of simulations.

  16. Multi-blocking strategies for the INS3D incompressible Navier-Stokes code

    NASA Technical Reports Server (NTRS)

    Gatlin, Boyd

    1990-01-01

    With the continuing development of bigger and faster supercomputers, computational fluid dynamics (CFD) has become a useful tool for real-world engineering design and analysis. However, the number of grid points necessary to resolve realistic flow fields numerically can easily exceed the memory capacity of available computers. In addition, geometric shapes of flow fields, such as those in the Space Shuttle Main Engine (SSME) power head, may be impossible to fill with continuous grids upon which to obtain numerical solutions to the equations of fluid motion. The solution to this dilemma is simply to decompose the computational domain into subblocks of manageable size. Computer codes that are single-block by construction can be modified to handle multiple blocks, but ad-hoc changes in the FORTRAN have to be made for each geometry treated. For engineering design and analysis, what is needed is generalization so that the blocking arrangement can be specified by the user. INS3D is a computer program for the solution of steady, incompressible flow problems. It is used frequently to solve engineering problems in the CFD Branch at Marshall Space Flight Center. INS3D uses an implicit solution algorithm and the concept of artificial compressibility to provide the necessary coupling between the pressure field and the velocity field. The development of generalized multi-block capability in INS3D is described.

  17. Evaluation of fluorescence in situ hybridization techniques to study long non-coding RNA expression in cultured cells

    PubMed Central

    Soares, Ricardo J; Maglieri, Giulia; Gutschner, Tony; Lund, Anders H; Nielsen, Boye S

    2018-01-01

    Abstract Deciphering the functions of long non-coding RNAs (lncRNAs) is facilitated by visualization of their subcellular localization using in situ hybridization (ISH) techniques. We evaluated four different ISH methods for detection of MALAT1 and CYTOR in cultured cells: a multiple probe detection approach with or without enzymatic signal amplification, a branched-DNA (bDNA) probe and an LNA-modified probe with enzymatic signal amplification. All four methods adequately stained MALAT1 in the nucleus in all of three cell lines investigated, HeLa, NHDF and T47D, and three of the methods detected the less expressed CYTOR. The sensitivity of the four ISH methods was evaluated by image analysis. In all three cell lines, the two methods involving enzymatic amplification gave the most intense MALAT1 signal, but the signal-to-background ratios were not different. CYTOR was best detected using the bDNA method. All four ISH methods showed significantly reduced MALAT1 signal in knock-out cells, and siRNA-induced knock-down of CYTOR resulted in significantly reduced CYTOR ISH signal, indicating good specificity of the probe designs and detection systems. Our data suggest that the ISH methods allow detection of both abundant and less abundantly expressed lncRNAs, although the latter required the use of the most specific and sensitive probe detection system. PMID:29059327

  18. Neurovascular Network Explorer 2.0: A Simple Tool for Exploring and Sharing a Database of Optogenetically-evoked Vasomotion in Mouse Cortex In Vivo.

    PubMed

    Uhlirova, Hana; Tian, Peifang; Kılıç, Kıvılcım; Thunemann, Martin; Sridhar, Vishnu B; Chmelik, Radim; Bartsch, Hauke; Dale, Anders M; Devor, Anna; Saisan, Payam A

    2018-05-04

    The importance of sharing experimental data in neuroscience grows with the amount and complexity of data acquired and various techniques used to obtain and process these data. However, the majority of experimental data, especially from individual studies of regular-sized laboratories never reach wider research community. A graphical user interface (GUI) engine called Neurovascular Network Explorer 2.0 (NNE 2.0) has been created as a tool for simple and low-cost sharing and exploring of vascular imaging data. NNE 2.0 interacts with a database containing optogenetically-evoked dilation/constriction time-courses of individual vessels measured in mice somatosensory cortex in vivo by 2-photon microscopy. NNE 2.0 enables selection and display of the time-courses based on different criteria (subject, branching order, cortical depth, vessel diameter, arteriolar tree) as well as simple mathematical manipulation (e.g. averaging, peak-normalization) and data export. It supports visualization of the vascular network in 3D and enables localization of the individual functional vessel diameter measurements within vascular trees. NNE 2.0, its source code, and the corresponding database are freely downloadable from UCSD Neurovascular Imaging Laboratory website 1 . The source code can be utilized by the users to explore the associated database or as a template for databasing and sharing their own experimental results provided the appropriate format.

  19. Gas and dust from solar metallicity AGB stars

    NASA Astrophysics Data System (ADS)

    Ventura, P.; Karakas, A.; Dell'Agli, F.; García-Hernández, D. A.; Guzman-Ramirez, L.

    2018-04-01

    We study the asymptotic giant branch (AGB) evolution of stars with masses between 1 M⊙and8.5 M⊙. We focus on stars with a solar chemical composition, which allows us to interpret evolved stars in the Galaxy. We present a detailed comparison with models of the same chemistry, calculated with a different evolution code and based on a different set of physical assumptions. We find that stars of mass ≥3.5 M⊙ experience hot bottom burning at the base of the envelope. They have AGB lifetimes shorter than ˜3 × 105 yr and eject into their surroundings gas contaminated by proton-capture nucleosynthesis, at an extent sensitive to the treatment of convection. Low-mass stars with 1.5 M⊙ ≤ M ≤ 3 M⊙ become carbon stars. During the final phases, the C/O ratio grows to ˜3. We find a remarkable agreement between the two codes for the low-mass models and conclude that predictions for the physical and chemical properties of these stars, and the AGB lifetime, are not that sensitive to the modelling of the AGB phase. The dust produced is also dependent on the mass: low-mass stars produce mainly solid carbon and silicon carbide dust, whereas higher mass stars produce silicates and alumina dust. Possible future observations potentially able to add more robustness to the present results are also discussed.

  20. A bacterial genetic screen identifies functional coding sequences of the insect mariner transposable element Famar1 amplified from the genome of the earwig, Forficula auricularia.

    PubMed

    Barry, Elizabeth G; Witherspoon, David J; Lampe, David J

    2004-02-01

    Transposons of the mariner family are widespread in animal genomes and have apparently infected them by horizontal transfer. Most species carry only old defective copies of particular mariner transposons that have diverged greatly from their active horizontally transferred ancestor, while a few contain young, very similar, and active copies. We report here the use of a whole-genome screen in bacteria to isolate somewhat diverged Famar1 copies from the European earwig, Forficula auricularia, that encode functional transposases. Functional and nonfunctional coding sequences of Famar1 and nonfunctional copies of Ammar1 from the European honey bee, Apis mellifera, were sequenced to examine their molecular evolution. No selection for sequence conservation was detected in any clade of a tree derived from these sequences, not even on branches leading to functional copies. This agrees with the current model for mariner transposon evolution that expects neutral evolution within particular hosts, with selection for function occurring only upon horizontal transfer to a new host. Our results further suggest that mariners are not finely tuned genetic entities and that a greater amount of sequence diversification than had previously been appreciated can occur in functional copies in a single host lineage. Finally, this method of isolating active copies can be used to isolate other novel active transposons without resorting to reconstruction of ancestral sequences.

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