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Sample records for rice transcriptomes next-generation

  1. Next-generation transcriptome assembly

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    Martin, Jeffrey A.; Wang, Zhong

    2011-09-01

    Transcriptomics studies often rely on partial reference transcriptomes that fail to capture the full catalog of transcripts and their variations. Recent advances in sequencing technologies and assembly algorithms have facilitated the reconstruction of the entire transcriptome by deep RNA sequencing (RNA-seq), even without a reference genome. However, transcriptome assembly from billions of RNA-seq reads, which are often very short, poses a significant informatics challenge. This Review summarizes the recent developments in transcriptome assembly approaches - reference-based, de novo and combined strategies-along with some perspectives on transcriptome assembly in the near future.

  2. Using next generation transcriptome sequencing to predict an ectomycorrhizal metabolome

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    Cseke Leland J

    2011-05-01

    Full Text Available Abstract Background Mycorrhizae, symbiotic interactions between soil fungi and tree roots, are ubiquitous in terrestrial ecosystems. The fungi contribute phosphorous, nitrogen and mobilized nutrients from organic matter in the soil and in return the fungus receives photosynthetically-derived carbohydrates. This union of plant and fungal metabolisms is the mycorrhizal metabolome. Understanding this symbiotic relationship at a molecular level provides important contributions to the understanding of forest ecosystems and global carbon cycling. Results We generated next generation short-read transcriptomic sequencing data from fully-formed ectomycorrhizae between Laccaria bicolor and aspen (Populus tremuloides roots. The transcriptomic data was used to identify statistically significantly expressed gene models using a bootstrap-style approach, and these expressed genes were mapped to specific metabolic pathways. Integration of expressed genes that code for metabolic enzymes and the set of expressed membrane transporters generates a predictive model of the ectomycorrhizal metabolome. The generated model of mycorrhizal metabolome predicts that the specific compounds glycine, glutamate, and allantoin are synthesized by L. bicolor and that these compounds or their metabolites may be used for the benefit of aspen in exchange for the photosynthetically-derived sugars fructose and glucose. Conclusions The analysis illustrates an approach to generate testable biological hypotheses to investigate the complex molecular interactions that drive ectomycorrhizal symbiosis. These models are consistent with experimental environmental data and provide insight into the molecular exchange processes for organisms in this complex ecosystem. The method used here for predicting metabolomic models of mycorrhizal systems from deep RNA sequencing data can be generalized and is broadly applicable to transcriptomic data derived from complex systems.

  3. Comparison of next generation sequencing technologies for transcriptome characterization

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    Soltis Douglas E

    2009-08-01

    Full Text Available Abstract Background We have developed a simulation approach to help determine the optimal mixture of sequencing methods for most complete and cost effective transcriptome sequencing. We compared simulation results for traditional capillary sequencing with "Next Generation" (NG ultra high-throughput technologies. The simulation model was parameterized using mappings of 130,000 cDNA sequence reads to the Arabidopsis genome (NCBI Accession SRA008180.19. We also generated 454-GS20 sequences and de novo assemblies for the basal eudicot California poppy (Eschscholzia californica and the magnoliid avocado (Persea americana using a variety of methods for cDNA synthesis. Results The Arabidopsis reads tagged more than 15,000 genes, including new splice variants and extended UTR regions. Of the total 134,791 reads (13.8 MB, 119,518 (88.7% mapped exactly to known exons, while 1,117 (0.8% mapped to introns, 11,524 (8.6% spanned annotated intron/exon boundaries, and 3,066 (2.3% extended beyond the end of annotated UTRs. Sequence-based inference of relative gene expression levels correlated significantly with microarray data. As expected, NG sequencing of normalized libraries tagged more genes than non-normalized libraries, although non-normalized libraries yielded more full-length cDNA sequences. The Arabidopsis data were used to simulate additional rounds of NG and traditional EST sequencing, and various combinations of each. Our simulations suggest a combination of FLX and Solexa sequencing for optimal transcriptome coverage at modest cost. We have also developed ESTcalc http://fgp.huck.psu.edu/NG_Sims/ngsim.pl, an online webtool, which allows users to explore the results of this study by specifying individualized costs and sequencing characteristics. Conclusion NG sequencing technologies are a highly flexible set of platforms that can be scaled to suit different project goals. In terms of sequence coverage alone, the NG sequencing is a dramatic advance

  4. SNP discovery in the transcriptome of white Pacific shrimp Litopenaeus vannamei by next generation sequencing.

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    Yang Yu

    Full Text Available The application of next generation sequencing technology has greatly facilitated high throughput single nucleotide polymorphism (SNP discovery and genotyping in genetic research. In the present study, SNPs were discovered based on two transcriptomes of Litopenaeus vannamei (L. vannamei generated from Illumina sequencing platform HiSeq 2000. One transcriptome of L. vannamei was obtained through sequencing on the RNA from larvae at mysis stage and its reference sequence was de novo assembled. The data from another transcriptome were downloaded from NCBI and the reads of the two transcriptomes were mapped separately to the assembled reference by BWA. SNP calling was performed using SAMtools. A total of 58,717 and 36,277 SNPs with high quality were predicted from the two transcriptomes, respectively. SNP calling was also performed using the reads of two transcriptomes together, and a total of 96,040 SNPs with high quality were predicted. Among these 96,040 SNPs, 5,242 and 29,129 were predicted as non-synonymous and synonymous SNPs respectively. Characterization analysis of the predicted SNPs in L. vannamei showed that the estimated SNP frequency was 0.21% (one SNP per 476 bp and the estimated ratio for transition to transversion was 2.0. Fifty SNPs were randomly selected for validation by Sanger sequencing after PCR amplification and 76% of SNPs were confirmed, which indicated that the SNPs predicted in this study were reliable. These SNPs will be very useful for genetic study in L. vannamei, especially for the high density linkage map construction and genome-wide association studies.

  5. Analysis of Litopenaeus vannamei transcriptome using the next-generation DNA sequencing technique.

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    Chaozheng Li

    Full Text Available BACKGROUND: Pacific white shrimp (Litopenaeus vannamei, the major species of farmed shrimps in the world, has been attracting extensive studies, which require more and more genome background knowledge. The now available transcriptome data of L. vannamei are insufficient for research requirements, and have not been adequately assembled and annotated. METHODOLOGY/PRINCIPAL FINDINGS: This is the first study that used a next-generation high-throughput DNA sequencing technique, the Solexa/Illumina GA II method, to analyze the transcriptome from whole bodies of L. vannamei larvae. More than 2.4 Gb of raw data were generated, and 109,169 unigenes with a mean length of 396 bp were assembled using the SOAP denovo software. 73,505 unigenes (>200 bp with good quality sequences were selected and subjected to annotation analysis, among which 37.80% can be matched in NCBI Nr database, 37.3% matched in Swissprot, and 44.1% matched in TrEMBL. Using BLAST and BLAST2Go softwares, 11,153 unigenes were classified into 25 Clusters of Orthologous Groups of proteins (COG categories, 8171 unigenes were assigned into 51 Gene ontology (GO functional groups, and 18,154 unigenes were divided into 220 Kyoto Encyclopedia of Genes and Genomes (KEGG pathways. To primarily verify part of the results of assembly and annotations, 12 assembled unigenes that are homologous to many embryo development-related genes were chosen and subjected to RT-PCR for electrophoresis and Sanger sequencing analyses, and to real-time PCR for expression profile analyses during embryo development. CONCLUSIONS/SIGNIFICANCE: The L. vannamei transcriptome analyzed using the next-generation sequencing technique enriches the information of L. vannamei genes, which will facilitate our understanding of the genome background of crustaceans, and promote the studies on L. vannamei.

  6. Comparative Transcriptomes and EVO-DEVO Studies Depending on Next Generation Sequencing

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    Tiancheng Liu

    2015-01-01

    Full Text Available High throughput technology has prompted the progressive omics studies, including genomics and transcriptomics. We have reviewed the improvement of comparative omic studies, which are attributed to the high throughput measurement of next generation sequencing technology. Comparative genomics have been successfully applied to evolution analysis while comparative transcriptomics are adopted in comparison of expression profile from two subjects by differential expression or differential coexpression, which enables their application in evolutionary developmental biology (EVO-DEVO studies. EVO-DEVO studies focus on the evolutionary pressure affecting the morphogenesis of development and previous works have been conducted to illustrate the most conserved stages during embryonic development. Old measurements of these studies are based on the morphological similarity from macro view and new technology enables the micro detection of similarity in molecular mechanism. Evolutionary model of embryo development, which includes the “funnel-like” model and the “hourglass” model, has been evaluated by combination of these new comparative transcriptomic methods with prior comparative genomic information. Although the technology has promoted the EVO-DEVO studies into a new era, technological and material limitation still exist and further investigations require more subtle study design and procedure.

  7. Comparative analyses of two Geraniaceae transcriptomes using next-generation sequencing.

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    Zhang, Jin; Ruhlman, Tracey A; Mower, Jeffrey P; Jansen, Robert K

    2013-12-29

    Organelle genomes of Geraniaceae exhibit several unusual evolutionary phenomena compared to other angiosperm families including accelerated nucleotide substitution rates, widespread gene loss, reduced RNA editing, and extensive genomic rearrangements. Since most organelle-encoded proteins function in multi-subunit complexes that also contain nuclear-encoded proteins, it is likely that the atypical organellar phenomena affect the evolution of nuclear genes encoding organellar proteins. To begin to unravel the complex co-evolutionary interplay between organellar and nuclear genomes in this family, we sequenced nuclear transcriptomes of two species, Geranium maderense and Pelargonium x hortorum. Normalized cDNA libraries of G. maderense and P. x hortorum were used for transcriptome sequencing. Five assemblers (MIRA, Newbler, SOAPdenovo, SOAPdenovo-trans [SOAPtrans], Trinity) and two next-generation technologies (454 and Illumina) were compared to determine the optimal transcriptome sequencing approach. Trinity provided the highest quality assembly of Illumina data with the deepest transcriptome coverage. An analysis to determine the amount of sequencing needed for de novo assembly revealed diminishing returns of coverage and quality with data sets larger than sixty million Illumina paired end reads for both species. The G. maderense and P. x hortorum transcriptomes contained fewer transcripts encoding the PLS subclass of PPR proteins relative to other angiosperms, consistent with reduced mitochondrial RNA editing activity in Geraniaceae. In addition, transcripts for all six plastid targeted sigma factors were identified in both transcriptomes, suggesting that one of the highly divergent rpoA-like ORFs in the P. x hortorum plastid genome is functional. The findings support the use of the Illumina platform and assemblers optimized for transcriptome assembly, such as Trinity or SOAPtrans, to generate high-quality de novo transcriptomes with broad coverage. In addition

  8. Transcriptome sequencing of the Microarray Quality Control (MAQC RNA reference samples using next generation sequencing

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    Thierry-Mieg Danielle

    2009-06-01

    Full Text Available Abstract Background Transcriptome sequencing using next-generation sequencing platforms will soon be competing with DNA microarray technologies for global gene expression analysis. As a preliminary evaluation of these promising technologies, we performed deep sequencing of cDNA synthesized from the Microarray Quality Control (MAQC reference RNA samples using Roche's 454 Genome Sequencer FLX. Results We generated more that 3.6 million sequence reads of average length 250 bp for the MAQC A and B samples and introduced a data analysis pipeline for translating cDNA read counts into gene expression levels. Using BLAST, 90% of the reads mapped to the human genome and 64% of the reads mapped to the RefSeq database of well annotated genes with e-values ≤ 10-20. We measured gene expression levels in the A and B samples by counting the numbers of reads that mapped to individual RefSeq genes in multiple sequencing runs to evaluate the MAQC quality metrics for reproducibility, sensitivity, specificity, and accuracy and compared the results with DNA microarrays and Quantitative RT-PCR (QRTPCR from the MAQC studies. In addition, 88% of the reads were successfully aligned directly to the human genome using the AceView alignment programs with an average 90% sequence similarity to identify 137,899 unique exon junctions, including 22,193 new exon junctions not yet contained in the RefSeq database. Conclusion Using the MAQC metrics for evaluating the performance of gene expression platforms, the ExpressSeq results for gene expression levels showed excellent reproducibility, sensitivity, and specificity that improved systematically with increasing shotgun sequencing depth, and quantitative accuracy that was comparable to DNA microarrays and QRTPCR. In addition, a careful mapping of the reads to the genome using the AceView alignment programs shed new light on the complexity of the human transcriptome including the discovery of thousands of new splice variants.

  9. Next generation sequencing and analysis of a conserved transcriptome of New Zealand's kiwi.

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    Subramanian, Sankar; Huynen, Leon; Millar, Craig D; Lambert, David M

    2010-12-15

    Kiwi is a highly distinctive, flightless and endangered ratite bird endemic to New Zealand. To understand the patterns of molecular evolution of the nuclear protein-coding genes in brown kiwi (Apteryx australis mantelli) and to determine the timescale of avian history we sequenced a transcriptome obtained from a kiwi embryo using next generation sequencing methods. We then assembled the conserved protein-coding regions using the chicken proteome as a scaffold. Using 1,543 conserved protein coding genes we estimated the neutral evolutionary divergence between the kiwi and chicken to be ~45%, which is approximately equal to the divergence computed for the human-mouse pair using the same set of genes. A large fraction of genes was found to be under high selective constraint, as most of the expressed genes appeared to be involved in developmental gene regulation. Our study suggests a significant relationship between gene expression levels and protein evolution. Using sequences from over 700 nuclear genes we estimated the divergence between the two basal avian groups, Palaeognathae and Neognathae to be 132 million years, which is consistent with previous studies using mitochondrial genes. The results of this investigation revealed patterns of mutation and purifying selection in conserved protein coding regions in birds. Furthermore this study suggests a relatively cost-effective way of obtaining a glimpse into the fundamental molecular evolutionary attributes of a genome, particularly when no closely related genomic sequence is available.

  10. Next generation sequencing and analysis of a conserved transcriptome of New Zealand's kiwi

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    Huynen Leon

    2010-12-01

    Full Text Available Abstract Background Kiwi is a highly distinctive, flightless and endangered ratite bird endemic to New Zealand. To understand the patterns of molecular evolution of the nuclear protein-coding genes in brown kiwi (Apteryx australis mantelli and to determine the timescale of avian history we sequenced a transcriptome obtained from a kiwi embryo using next generation sequencing methods. We then assembled the conserved protein-coding regions using the chicken proteome as a scaffold. Results Using 1,543 conserved protein coding genes we estimated the neutral evolutionary divergence between the kiwi and chicken to be ~45%, which is approximately equal to the divergence computed for the human-mouse pair using the same set of genes. A large fraction of genes was found to be under high selective constraint, as most of the expressed genes appeared to be involved in developmental gene regulation. Our study suggests a significant relationship between gene expression levels and protein evolution. Using sequences from over 700 nuclear genes we estimated the divergence between the two basal avian groups, Palaeognathae and Neognathae to be 132 million years, which is consistent with previous studies using mitochondrial genes. Conclusions The results of this investigation revealed patterns of mutation and purifying selection in conserved protein coding regions in birds. Furthermore this study suggests a relatively cost-effective way of obtaining a glimpse into the fundamental molecular evolutionary attributes of a genome, particularly when no closely related genomic sequence is available.

  11. Next generation transcriptomics and genomics elucidate biological complexity of microglia in health and disease

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    Wes, Paul D; Holtman, Inge R; Boddeke, Erik W G M; Möller, Thomas; Eggen, Bart J L

    2015-01-01

    Genome-wide expression profiling technology has resulted in detailed transcriptome data for a wide range of tissues, conditions and diseases. In neuroscience, expression datasets were mostly generated using whole brain tissue samples, resulting in data from a mixture of cell types, including glial

  12. Discovery and validation of Barrett's esophagus microRNA transcriptome by next generation sequencing.

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    Ajay Bansal

    Full Text Available Barrett's esophagus (BE is transition from squamous to columnar mucosa as a result of gastroesophageal reflux disease (GERD. The role of microRNA during this transition has not been systematically studied.For initial screening, total RNA from 5 GERD and 6 BE patients was size fractionated. RNA <70 nucleotides was subjected to SOLiD 3 library preparation and next generation sequencing (NGS. Bioinformatics analysis was performed using R package "DEseq". A p value<0.05 adjusted for a false discovery rate of 5% was considered significant. NGS-identified miRNA were validated using qRT-PCR in an independent group of 40 GERD and 27 BE patients. MicroRNA expression of human BE tissues was also compared with three BE cell lines.NGS detected 19.6 million raw reads per sample. 53.1% of filtered reads mapped to miRBase version 18. NGS analysis followed by qRT-PCR validation found 10 differentially expressed miRNA; several are novel (-708-5p, -944, -224-5p and -3065-5p. Up- or down- regulation predicted by NGS was matched by qRT-PCR in every case. Human BE tissues and BE cell lines showed a high degree of concordance (70-80% in miRNA expression. Prediction analysis identified targets that mapped to developmental signaling pathways such as TGFβ and Notch and inflammatory pathways such as toll-like receptor signaling and TGFβ. Cluster analysis found similarly regulated (up or down miRNA to share common targets suggesting coordination between miRNA.Using highly sensitive next-generation sequencing, we have performed a comprehensive genome wide analysis of microRNA in BE and GERD patients. Differentially expressed miRNA between BE and GERD have been further validated. Expression of miRNA between BE human tissues and BE cell lines are highly correlated. These miRNA should be studied in biological models to further understand BE development.

  13. Fast skeletal muscle transcriptome of the Gilthead sea bream (Sparus aurata determined by next generation sequencing

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    Garcia de la serrana Daniel

    2012-05-01

    Full Text Available Abstract Background The gilthead sea bream (Sparus aurata L. occurs around the Mediterranean and along Eastern Atlantic coasts from Great Britain to Senegal. It is tolerant of a wide range of temperatures and salinities and is often found in brackish coastal lagoons and estuarine areas, particularly early in its life cycle. Gilthead sea bream are extensively cultivated in the Mediterranean with an annual production of 125,000 metric tonnes. Here we present a de novo assembly of the fast skeletal muscle transcriptome of gilthead sea bream using 454 reads and identify gene paralogues, splice variants and microsatellite repeats. An annotated transcriptome of the skeletal muscle will facilitate understanding of the genetic and molecular basis of traits linked to production in this economically important species. Results Around 2.7 million reads of mRNA sequence data were generated from the fast myotomal of adult fish (~2 kg and juvenile fish (~0.09 kg that had been either fed to satiation, fasted for 3-5d or transferred to low (11°C or high (33°C temperatures for 3-5d. Newbler v2.5 assembly resulted in 43,461 isotigs >100 bp. The number of sequences annotated by searching protein and gene ontology databases was 10,465. The average coverage of the annotated isotigs was x40 containing 5655 unique gene IDs and 785 full-length cDNAs coding for proteins containing 58–1536 amino acids. The v2.5 assembly was found to be of good quality based on validation using 200 full-length cDNAs from GenBank. Annotated isotigs from the reference transcriptome were attributable to 344 KEGG pathway maps. We identified 26 gene paralogues (20 of them teleost-specific and 43 splice variants, of which 12 had functional domains missing that were likely to affect their biological function. Many key transcription factors, signaling molecules and structural proteins necessary for myogenesis and muscle growth have been identified. Physiological status affected the

  14. Transcriptome analysis of carnation (Dianthus caryophyllus L.) based on next-generation sequencing technology.

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    Tanase, Koji; Nishitani, Chikako; Hirakawa, Hideki; Isobe, Sachiko; Tabata, Satoshi; Ohmiya, Akemi; Onozaki, Takashi

    2012-07-02

    Carnation (Dianthus caryophyllus L.), in the family Caryophyllaceae, can be found in a wide range of colors and is a model system for studies of flower senescence. In addition, it is one of the most important flowers in the global floriculture industry. However, few genomics resources, such as sequences and markers are available for carnation or other members of the Caryophyllaceae. To increase our understanding of the genetic control of important characters in carnation, we generated an expressed sequence tag (EST) database for a carnation cultivar important in horticulture by high-throughput sequencing using 454 pyrosequencing technology. We constructed a normalized cDNA library and a 3'-UTR library of carnation, obtaining a total of 1,162,126 high-quality reads. These reads were assembled into 300,740 unigenes consisting of 37,844 contigs and 262,896 singlets. The contigs were searched against an Arabidopsis sequence database, and 61.8% (23,380) of them had at least one BLASTX hit. These contigs were also annotated with Gene Ontology (GO) and were found to cover a broad range of GO categories. Furthermore, we identified 17,362 potential simple sequence repeats (SSRs) in 14,291 of the unigenes. We focused on gene discovery in the areas of flower color and ethylene biosynthesis. Transcripts were identified for almost every gene involved in flower chlorophyll and carotenoid metabolism and in anthocyanin biosynthesis. Transcripts were also identified for every step in the ethylene biosynthesis pathway. We present the first large-scale sequence data set for carnation, generated using next-generation sequencing technology. The large EST database generated from these sequences is an informative resource for identifying genes involved in various biological processes in carnation and provides an EST resource for understanding the genetic diversity of this plant.

  15. Transcriptome analysis of carnation (Dianthus caryophyllus L. based on next-generation sequencing technology

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    Tanase Koji

    2012-07-01

    Full Text Available Abstract Background Carnation (Dianthus caryophyllus L., in the family Caryophyllaceae, can be found in a wide range of colors and is a model system for studies of flower senescence. In addition, it is one of the most important flowers in the global floriculture industry. However, few genomics resources, such as sequences and markers are available for carnation or other members of the Caryophyllaceae. To increase our understanding of the genetic control of important characters in carnation, we generated an expressed sequence tag (EST database for a carnation cultivar important in horticulture by high-throughput sequencing using 454 pyrosequencing technology. Results We constructed a normalized cDNA library and a 3’-UTR library of carnation, obtaining a total of 1,162,126 high-quality reads. These reads were assembled into 300,740 unigenes consisting of 37,844 contigs and 262,896 singlets. The contigs were searched against an Arabidopsis sequence database, and 61.8% (23,380 of them had at least one BLASTX hit. These contigs were also annotated with Gene Ontology (GO and were found to cover a broad range of GO categories. Furthermore, we identified 17,362 potential simple sequence repeats (SSRs in 14,291 of the unigenes. We focused on gene discovery in the areas of flower color and ethylene biosynthesis. Transcripts were identified for almost every gene involved in flower chlorophyll and carotenoid metabolism and in anthocyanin biosynthesis. Transcripts were also identified for every step in the ethylene biosynthesis pathway. Conclusions We present the first large-scale sequence data set for carnation, generated using next-generation sequencing technology. The large EST database generated from these sequences is an informative resource for identifying genes involved in various biological processes in carnation and provides an EST resource for understanding the genetic diversity of this plant.

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

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    Shin-ichi Hashimoto

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

  17. Whole transcriptome analysis using next-generation sequencing of model species Setaria viridis to support C4 photosynthesis research.

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    Xu, Jiajia; Li, Yuanyuan; Ma, Xiuling; Ding, Jianfeng; Wang, Kai; Wang, Sisi; Tian, Ye; Zhang, Hui; Zhu, Xin-Guang

    2013-09-01

    Setaria viridis is an emerging model species for genetic studies of C4 photosynthesis. Many basic molecular resources need to be developed to support for this species. In this paper, we performed a comprehensive transcriptome analysis from multiple developmental stages and tissues of S. viridis using next-generation sequencing technologies. Sequencing of the transcriptome from multiple tissues across three developmental stages (seed germination, vegetative growth, and reproduction) yielded a total of 71 million single end 100 bp long reads. Reference-based assembly using Setaria italica genome as a reference generated 42,754 transcripts. De novo assembly generated 60,751 transcripts. In addition, 9,576 and 7,056 potential simple sequence repeats (SSRs) covering S. viridis genome were identified when using the reference based assembled transcripts and the de novo assembled transcripts, respectively. This identified transcripts and SSR provided by this study can be used for both reverse and forward genetic studies based on S. viridis.

  18. Efficiency to Discovery Transgenic Loci in GM Rice Using Next Generation Sequencing Whole Genome Re-sequencing

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    Doori Park

    2015-09-01

    Full Text Available Molecular characterization technology in genetically modified organisms, in addition to how transgenic biotechnologies are developed now require full transparency to assess the risk to living modified and non-modified organisms. Next generation sequencing (NGS methodology is suggested as an effective means in genome characterization and detection of transgenic insertion locations. In the present study, we applied NGS to insert transgenic loci, specifically the epidermal growth factor (EGF in genetically modified rice cells. A total of 29.3 Gb (~72× coverage was sequenced with a 2 × 150 bp paired end method by Illumina HiSeq2500, which was consecutively mapped to the rice genome and T-vector sequence. The compatible pairs of reads were successfully mapped to 10 loci on the rice chromosome and vector sequences were validated to the insertion location by polymerase chain reaction (PCR amplification. The EGF transgenic site was confirmed only on chromosome 4 by PCR. Results of this study demonstrated the success of NGS data to characterize the rice genome. Bioinformatics analyses must be developed in association with NGS data to identify highly accurate transgenic sites.

  19. Next generation sequencing based transcriptome analysis of septic-injury responsive genes in the beetle Tribolium castaneum.

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    Boran Altincicek

    Full Text Available Beetles (Coleoptera are the most diverse animal group on earth and interact with numerous symbiotic or pathogenic microbes in their environments. The red flour beetle Tribolium castaneum is a genetically tractable model beetle species and its whole genome sequence has recently been determined. To advance our understanding of the molecular basis of beetle immunity here we analyzed the whole transcriptome of T. castaneum by high-throughput next generation sequencing technology. Here, we demonstrate that the Illumina/Solexa sequencing approach of cDNA samples from T. castaneum including over 9.7 million reads with 72 base pairs (bp length (approximately 700 million bp sequence information with about 30× transcriptome coverage confirms the expression of most predicted genes and enabled subsequent qualitative and quantitative transcriptome analysis. This approach recapitulates our recent quantitative real-time PCR studies of immune-challenged and naïve T. castaneum beetles, validating our approach. Furthermore, this sequencing analysis resulted in the identification of 73 differentially expressed genes upon immune-challenge with statistical significance by comparing expression data to calculated values derived by fitting to generalized linear models. We identified up regulation of diverse immune-related genes (e.g. Toll receptor, serine proteinases, DOPA decarboxylase and thaumatin and of numerous genes encoding proteins with yet unknown functions. Of note, septic-injury resulted also in the elevated expression of genes encoding heat-shock proteins or cytochrome P450s supporting the view that there is crosstalk between immune and stress responses in T. castaneum. The present study provides a first comprehensive overview of septic-injury responsive genes in T. castaneum beetles. Identified genes advance our understanding of T. castaneum specific gene expression alteration upon immune-challenge in particular and may help to understand beetle immunity

  20. Use of mutagenesis, genetic mapping and next generation transcriptomics to investigate insecticide resistance mechanisms.

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    Predrag Kalajdzic

    Full Text Available Insecticide resistance is a worldwide problem with major impact on agriculture and human health. Understanding the underlying molecular mechanisms is crucial for the management of the phenomenon; however, this information often comes late with respect to the implementation of efficient counter-measures, particularly in the case of metabolism-based resistance mechanisms. We employed a genome-wide insertional mutagenesis screen to Drosophila melanogaster, using a Minos-based construct, and retrieved a line (MiT[w(-]3R2 resistant to the neonicotinoid insecticide Imidacloprid. Biochemical and bioassay data indicated that resistance was due to increased P450 detoxification. Deep sequencing transcriptomic analysis revealed substantial over- and under-representation of 357 transcripts in the resistant line, including statistically significant changes in mixed function oxidases, peptidases and cuticular proteins. Three P450 genes (Cyp4p2, Cyp6a2 and Cyp6g1 located on the 2R chromosome, are highly up-regulated in mutant flies compared to susceptible Drosophila. One of them (Cyp6g1 has been already described as a major factor for Imidacloprid resistance, which validated the approach. Elevated expression of the Cyp4p2 was not previously documented in Drosophila lines resistant to neonicotinoids. In silico analysis using the Drosophila reference genome failed to detect transcription binding factors or microRNAs associated with the over-expressed Cyp genes. The resistant line did not contain a Minos insertion in its chromosomes, suggesting a hit-and-run event, i.e. an insertion of the transposable element, followed by an excision which caused the mutation. Genetic mapping placed the resistance locus to the right arm of the second chromosome, within a ∼1 Mb region, where the highly up-regulated Cyp6g1 gene is located. The nature of the unknown mutation that causes resistance is discussed on the basis of these results.

  1. Comprehensive transcriptome assembly of Chickpea (Cicer arietinum L. using sanger and next generation sequencing platforms: development and applications.

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    Himabindu Kudapa

    Full Text Available A comprehensive transcriptome assembly of chickpea has been developed using 134.95 million Illumina single-end reads, 7.12 million single-end FLX/454 reads and 139,214 Sanger expressed sequence tags (ESTs from >17 genotypes. This hybrid transcriptome assembly, referred to as Cicer arietinumTranscriptome Assembly version 2 (CaTA v2, available at http://data.comparative-legumes.org/transcriptomes/cicar/lista_cicar-201201, comprising 46,369 transcript assembly contigs (TACs has an N50 length of 1,726 bp and a maximum contig size of 15,644 bp. Putative functions were determined for 32,869 (70.8% of the TACs and gene ontology assignments were determined for 21,471 (46.3%. The new transcriptome assembly was compared with the previously available chickpea transcriptome assemblies as well as to the chickpea genome. Comparative analysis of CaTA v2 against transcriptomes of three legumes - Medicago, soybean and common bean, resulted in 27,771 TACs common to all three legumes indicating strong conservation of genes across legumes. CaTA v2 was also used for identification of simple sequence repeats (SSRs and intron spanning regions (ISRs for developing molecular markers. ISRs were identified by aligning TACs to the Medicago genome, and their putative mapping positions at chromosomal level were identified using transcript map of chickpea. Primer pairs were designed for 4,990 ISRs, each representing a single contig for which predicted positions are inferred and distributed across eight linkage groups. A subset of randomly selected ISRs representing all eight chickpea linkage groups were validated on five chickpea genotypes and showed 20% polymorphism with average polymorphic information content (PIC of 0.27. In summary, the hybrid transcriptome assembly developed and novel markers identified can be used for a variety of applications such as gene discovery, marker-trait association, diversity analysis etc., to advance genetics research and breeding

  2. Next-Generation Sequencing of the Chrysanthemum nankingense (Asteraceae) Transcriptome Permits Large-Scale Unigene Assembly and SSR Marker Discovery

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    Wang, Haibin; Jiang, Jiafu; Chen, Sumei; Qi, Xiangyu; Peng, Hui; Li, Pirui; Song, Aiping; Guan, Zhiyong; Fang, Weimin; Liao, Yuan; Chen, Fadi

    2013-01-01

    Background Simple sequence repeats (SSRs) are ubiquitous in eukaryotic genomes. Chrysanthemum is one of the largest genera in the Asteraceae family. Only few Chrysanthemum expressed sequence tag (EST) sequences have been acquired to date, so the number of available EST-SSR markers is very low. Methodology/Principal Findings Illumina paired-end sequencing technology produced over 53 million sequencing reads from C. nankingense mRNA. The subsequent de novo assembly yielded 70,895 unigenes, of which 45,789 (64.59%) unigenes showed similarity to the sequences in NCBI database. Out of 45,789 sequences, 107 have hits to the Chrysanthemum Nr protein database; 679 and 277 sequences have hits to the database of Helianthus and Lactuca species, respectively. MISA software identified a large number of putative EST-SSRs, allowing 1,788 primer pairs to be designed from the de novo transcriptome sequence and a further 363 from archival EST sequence. Among 100 primer pairs randomly chosen, 81 markers have amplicons and 20 are polymorphic for genotypes analysis in Chrysanthemum. The results showed that most (but not all) of the assays were transferable across species and that they exposed a significant amount of allelic diversity. Conclusions/Significance SSR markers acquired by transcriptome sequencing are potentially useful for marker-assisted breeding and genetic analysis in the genus Chrysanthemum and its related genera. PMID:23626799

  3. Generation of mast cells from mouse fetus: analysis of differentiation and functionality, and transcriptome profiling using next generation sequencer.

    Directory of Open Access Journals (Sweden)

    Nobuyuki Fukuishi

    Full Text Available While gene knockout technology can reveal the roles of proteins in cellular functions, including in mast cells, fetal death due to gene manipulation frequently interrupts experimental analysis. We generated mast cells from mouse fetal liver (FLMC, and compared the fundamental functions of FLMC with those of bone marrow-derived mouse mast cells (BMMC. Under electron microscopy, numerous small and electron-dense granules were observed in FLMC. In FLMC, the expression levels of a subunit of the FcεRI receptor and degranulation by IgE cross-linking were comparable with BMMC. By flow cytometry we observed surface expression of c-Kit prior to that of FcεRI on FLMC, although on BMMC the expression of c-Kit came after FcεRI. The surface expression levels of Sca-1 and c-Kit, a marker of putative mast cell precursors, were slightly different between bone marrow cells and fetal liver cells, suggesting that differentiation stage or cell type are not necessarily equivalent between both lineages. Moreover, this indicates that phenotypically similar mast cells may not have undergone an identical process of differentiation. By comprehensive analysis using the next generation sequencer, the same frequency of gene expression was observed for 98.6% of all transcripts in both cell types. These results indicate that FLMC could represent a new and useful tool for exploring mast cell differentiation, and may help to elucidate the roles of individual proteins in the function of mast cells where gene manipulation can induce embryonic lethality in the mid to late stages of pregnancy.

  4. Generation of mast cells from mouse fetus: analysis of differentiation and functionality, and transcriptome profiling using next generation sequencer.

    Science.gov (United States)

    Fukuishi, Nobuyuki; Igawa, Yuusuke; Kunimi, Tomoyo; Hamano, Hirofumi; Toyota, Masao; Takahashi, Hironobu; Kenmoku, Hiromichi; Yagi, Yasuyuki; Matsui, Nobuaki; Akagi, Masaaki

    2013-01-01

    While gene knockout technology can reveal the roles of proteins in cellular functions, including in mast cells, fetal death due to gene manipulation frequently interrupts experimental analysis. We generated mast cells from mouse fetal liver (FLMC), and compared the fundamental functions of FLMC with those of bone marrow-derived mouse mast cells (BMMC). Under electron microscopy, numerous small and electron-dense granules were observed in FLMC. In FLMC, the expression levels of a subunit of the FcεRI receptor and degranulation by IgE cross-linking were comparable with BMMC. By flow cytometry we observed surface expression of c-Kit prior to that of FcεRI on FLMC, although on BMMC the expression of c-Kit came after FcεRI. The surface expression levels of Sca-1 and c-Kit, a marker of putative mast cell precursors, were slightly different between bone marrow cells and fetal liver cells, suggesting that differentiation stage or cell type are not necessarily equivalent between both lineages. Moreover, this indicates that phenotypically similar mast cells may not have undergone an identical process of differentiation. By comprehensive analysis using the next generation sequencer, the same frequency of gene expression was observed for 98.6% of all transcripts in both cell types. These results indicate that FLMC could represent a new and useful tool for exploring mast cell differentiation, and may help to elucidate the roles of individual proteins in the function of mast cells where gene manipulation can induce embryonic lethality in the mid to late stages of pregnancy.

  5. De Novo Transcriptomic Analysis of an Oleaginous Microalga: Pathway Description and Gene Discovery for Production of Next-Generation Biofuels

    Science.gov (United States)

    Wan, LingLin; Han, Juan; Sang, Min; Li, AiFen; Wu, Hong; Yin, ShunJi; Zhang, ChengWu

    2012-01-01

    Background Eustigmatos cf. polyphem is a yellow-green unicellular soil microalga belonging to the eustimatophyte with high biomass and considerable production of triacylglycerols (TAGs) for biofuels, which is thus referred to as an oleaginous microalga. The paucity of microalgae genome sequences, however, limits development of gene-based biofuel feedstock optimization studies. Here we describe the sequencing and de novo transcriptome assembly for a non-model microalgae species, E. cf. polyphem, and identify pathways and genes of importance related to biofuel production. Results We performed the de novo assembly of E. cf. polyphem transcriptome using Illumina paired-end sequencing technology. In a single run, we produced 29,199,432 sequencing reads corresponding to 2.33 Gb total nucleotides. These reads were assembled into 75,632 unigenes with a mean size of 503 bp and an N50 of 663 bp, ranging from 100 bp to >3,000 bp. Assembled unigenes were subjected to BLAST similarity searches and annotated with Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) orthology identifiers. These analyses identified the majority of carbohydrate, fatty acids, TAG and carotenoids biosynthesis and catabolism pathways in E. cf. polyphem. Conclusions Our data provides the construction of metabolic pathways involved in the biosynthesis and catabolism of carbohydrate, fatty acids, TAG and carotenoids in E. cf. polyphem and provides a foundation for the molecular genetics and functional genomics required to direct metabolic engineering efforts that seek to enhance the quantity and character of microalgae-based biofuel feedstock. PMID:22536352

  6. De novo transcriptomic analysis of an oleaginous microalga: pathway description and gene discovery for production of next-generation biofuels.

    Directory of Open Access Journals (Sweden)

    LingLin Wan

    Full Text Available Eustigmatos cf. polyphem is a yellow-green unicellular soil microalga belonging to the eustimatophyte with high biomass and considerable production of triacylglycerols (TAGs for biofuels, which is thus referred to as an oleaginous microalga. The paucity of microalgae genome sequences, however, limits development of gene-based biofuel feedstock optimization studies. Here we describe the sequencing and de novo transcriptome assembly for a non-model microalgae species, E. cf. polyphem, and identify pathways and genes of importance related to biofuel production.We performed the de novo assembly of E. cf. polyphem transcriptome using Illumina paired-end sequencing technology. In a single run, we produced 29,199,432 sequencing reads corresponding to 2.33 Gb total nucleotides. These reads were assembled into 75,632 unigenes with a mean size of 503 bp and an N50 of 663 bp, ranging from 100 bp to >3,000 bp. Assembled unigenes were subjected to BLAST similarity searches and annotated with Gene Ontology (GO and Kyoto Encyclopedia of Genes and Genomes (KEGG orthology identifiers. These analyses identified the majority of carbohydrate, fatty acids, TAG and carotenoids biosynthesis and catabolism pathways in E. cf. polyphem.Our data provides the construction of metabolic pathways involved in the biosynthesis and catabolism of carbohydrate, fatty acids, TAG and carotenoids in E. cf. polyphem and provides a foundation for the molecular genetics and functional genomics required to direct metabolic engineering efforts that seek to enhance the quantity and character of microalgae-based biofuel feedstock.

  7. Transcriptome sequencing and annotation of the microalgae Dunaliella tertiolecta: Pathway description and gene discovery for production of next-generation biofuels

    Directory of Open Access Journals (Sweden)

    Bibby Kyle

    2011-03-01

    Full Text Available Abstract Background Biodiesel or ethanol derived from lipids or starch produced by microalgae may overcome many of the sustainability challenges previously ascribed to petroleum-based fuels and first generation plant-based biofuels. The paucity of microalgae genome sequences, however, limits gene-based biofuel feedstock optimization studies. Here we describe the sequencing and de novo transcriptome assembly for the non-model microalgae species, Dunaliella tertiolecta, and identify pathways and genes of importance related to biofuel production. Results Next generation DNA pyrosequencing technology applied to D. tertiolecta transcripts produced 1,363,336 high quality reads with an average length of 400 bases. Following quality and size trimming, ~ 45% of the high quality reads were assembled into 33,307 isotigs with a 31-fold coverage and 376,482 singletons. Assembled sequences and singletons were subjected to BLAST similarity searches and annotated with Gene Ontology (GO and Kyoto Encyclopedia of Genes and Genomes (KEGG orthology (KO identifiers. These analyses identified the majority of lipid and starch biosynthesis and catabolism pathways in D. tertiolecta. Conclusions The construction of metabolic pathways involved in the biosynthesis and catabolism of fatty acids, triacylglycrols, and starch in D. tertiolecta as well as the assembled transcriptome provide a foundation for the molecular genetics and functional genomics required to direct metabolic engineering efforts that seek to enhance the quantity and character of microalgae-based biofuel feedstock.

  8. Next-generation sequencing-based transcriptome analysis of Helicoverpa armigera Larvae immune-primed with Photorhabdus luminescens TT01.

    Directory of Open Access Journals (Sweden)

    Zengyang Zhao

    Full Text Available Although invertebrates are incapable of adaptive immunity, immunal reactions which are functionally similar to the adaptive immunity of vertebrates have been described in many studies of invertebrates including insects. The phenomenon was termed immune priming. In order to understand the molecular mechanism of immune priming, we employed Illumina/Solexa platform to investigate the transcriptional changes of the hemocytes and fat body of Helicoverpa armigera larvae immune-primed with the pathogenic bacteria Photorhabdus luminescens TT01. A total of 43.6 and 65.1 million clean reads with 4.4 and 6.5 gigabase sequence data were obtained from the TT01 (the immune-primed and PBS (non-primed cDNA libraries and assembled into 35,707 all-unigenes (non-redundant transcripts, which has a length varied from 201 to 16,947 bp and a N50 length of 1,997 bp. For 35,707 all-unigenes, 20,438 were functionally annotated and 2,494 were differentially expressed after immune priming. The differentially expressed genes (DEGs are mainly related to immunity, detoxification, development and metabolism of the host insect. Analysis on the annotated immune related DEGs supported a hypothesis that we proposed previously: the immune priming phenomenon observed in H. armigera larvae was achieved by regulation of key innate immune elements. The transcriptome profiling data sets (especially the sequences of 1,022 unannotated DEGs and the clues (such as those on immune-related signal and regulatory pathways obtained from this study will facilitate immune-related novel gene discovery and provide valuable information for further exploring the molecular mechanism of immune priming of invertebrates. All these will increase our understanding of invertebrate immunity which may provide new approaches to control insect pests or prevent epidemic of infectious diseases in economic invertebrates in the future.

  9. Next generation sequencing and de novo transcriptome analysis of Costus pictus D. Don, a non-model plant with potent anti-diabetic properties

    Directory of Open Access Journals (Sweden)

    Annadurai Ramasamy S

    2012-11-01

    Full Text Available Abstract Background Phyto-remedies for diabetic control are popular among patients with Type II Diabetes mellitus (DM, in addition to other diabetic control measures. A number of plant species are known to possess diabetic control properties. Costus pictus D. Don is popularly known as “Insulin Plant” in Southern India whose leaves have been reported to increase insulin pools in blood plasma. Next Generation Sequencing is employed as a powerful tool for identifying molecular signatures in the transcriptome related to physiological functions of plant tissues. We sequenced the leaf transcriptome of C. pictus using Illumina reversible dye terminator sequencing technology and used combination of bioinformatics tools for identifying transcripts related to anti-diabetic properties of C. pictus. Results A total of 55,006 transcripts were identified, of which 69.15% transcripts could be annotated. We identified transcripts related to pathways of bixin biosynthesis and geraniol and geranial biosynthesis as major transcripts from the class of isoprenoid secondary metabolites and validated the presence of putative norbixin methyltransferase, a precursor of Bixin. The transcripts encoding these terpenoids are known to be Peroxisome Proliferator-Activated Receptor (PPAR agonists and anti-glycation agents. Sequential extraction and High Performance Liquid Chromatography (HPLC confirmed the presence of bixin in C. pictus methanolic extracts. Another significant transcript identified in relation to anti-diabetic, anti-obesity and immuno-modulation is of Abscisic Acid biosynthetic pathway. We also report many other transcripts for the biosynthesis of antitumor, anti-oxidant and antimicrobial metabolites of C. pictus leaves. Conclusion Solid molecular signatures (transcripts related to bixin, abscisic acid, and geranial and geraniol biosynthesis for the anti-diabetic properties of C. pictus leaves and vital clues related to the other phytochemical functions

  10. Next generation initiation techniques

    Science.gov (United States)

    Warner, Tom; Derber, John; Zupanski, Milija; Cohn, Steve; Verlinde, Hans

    1993-01-01

    Four-dimensional data assimilation strategies can generally be classified as either current or next generation, depending upon whether they are used operationally or not. Current-generation data-assimilation techniques are those that are presently used routinely in operational-forecasting or research applications. They can be classified into the following categories: intermittent assimilation, Newtonian relaxation, and physical initialization. It should be noted that these techniques are the subject of continued research, and their improvement will parallel the development of next generation techniques described by the other speakers. Next generation assimilation techniques are those that are under development but are not yet used operationally. Most of these procedures are derived from control theory or variational methods and primarily represent continuous assimilation approaches, in which the data and model dynamics are 'fitted' to each other in an optimal way. Another 'next generation' category is the initialization of convective-scale models. Intermittent assimilation systems use an objective analysis to combine all observations within a time window that is centered on the analysis time. Continuous first-generation assimilation systems are usually based on the Newtonian-relaxation or 'nudging' techniques. Physical initialization procedures generally involve the use of standard or nonstandard data to force some physical process in the model during an assimilation period. Under the topic of next-generation assimilation techniques, variational approaches are currently being actively developed. Variational approaches seek to minimize a cost or penalty function which measures a model's fit to observations, background fields and other imposed constraints. Alternatively, the Kalman filter technique, which is also under investigation as a data assimilation procedure for numerical weather prediction, can yield acceptable initial conditions for mesoscale models. The

  11. Next-generation phylogenomics

    Directory of Open Access Journals (Sweden)

    Chan Cheong Xin

    2013-01-01

    Full Text Available Abstract Thanks to advances in next-generation technologies, genome sequences are now being generated at breadth (e.g. across environments and depth (thousands of closely related strains, individuals or samples unimaginable only a few years ago. Phylogenomics – the study of evolutionary relationships based on comparative analysis of genome-scale data – has so far been developed as industrial-scale molecular phylogenetics, proceeding in the two classical steps: multiple alignment of homologous sequences, followed by inference of a tree (or multiple trees. However, the algorithms typically employed for these steps scale poorly with number of sequences, such that for an increasing number of problems, high-quality phylogenomic analysis is (or soon will be computationally infeasible. Moreover, next-generation data are often incomplete and error-prone, and analysis may be further complicated by genome rearrangement, gene fusion and deletion, lateral genetic transfer, and transcript variation. Here we argue that next-generation data require next-generation phylogenomics, including so-called alignment-free approaches. Reviewers Reviewed by Mr Alexander Panchin (nominated by Dr Mikhail Gelfand, Dr Eugene Koonin and Prof Peter Gogarten. For the full reviews, please go to the Reviewers’ comments section.

  12. Next Generation Inverter

    Energy Technology Data Exchange (ETDEWEB)

    Zhao, Zilai [General Motors LLC, Detroit, MI (United States); Gough, Charles [General Motors LLC, Detroit, MI (United States)

    2016-04-22

    The goal of this Cooperative Agreement was the development of a Next Generation Inverter for General Motors’ electrified vehicles, including battery electric vehicles, range extended electric vehicles, plug-in hybrid electric vehicles and hybrid electric vehicles. The inverter is a critical electronics component that converts battery power (DC) to and from the electric power for the motor (AC).

  13. Next generation of accelerators

    International Nuclear Information System (INIS)

    Richter, B.

    1979-01-01

    Existing high-energy accelerators are reviewed, along with those under construction or being designed. Finally, some of the physics issues which go into setting machine parameters, and some of the features of the design of next generation electron and proton machines are discussed

  14. Dynalight Next Generation

    DEFF Research Database (Denmark)

    Jørgensen, Bo Nørregaard; Ottosen, Carl-Otto; Dam-Hansen, Carsten

    2016-01-01

    The project aims to develop the next generation of energy cost-efficient artificial lighting control that enables greenhouse growers to adapt their use of artificial lighting dynamically to fluctuations in the price of electricity. This is a necessity as fluctuations in the price of electricity c...

  15. Next Generation Social Networks

    DEFF Research Database (Denmark)

    Sørensen, Lene Tolstrup; Skouby, Knud Erik

    2008-01-01

    different online networks for communities of people who share interests or individuals who presents themselves through user produced content is what makes up the social networking of today. The purpose of this paper is to discuss perceived user requirements to the next generation social networks. The paper...

  16. Hacking the next generation

    CERN Document Server

    Dhanjani, Nitesh; Hardin, Brett

    2009-01-01

    With the advent of rich Internet applications, the explosion of social media, and the increased use of powerful cloud computing infrastructures, a new generation of attackers has added cunning new techniques to its arsenal. For anyone involved in defending an application or a network of systems, Hacking: The Next Generation is one of the few books to identify a variety of emerging attack vectors. You'll not only find valuable information on new hacks that attempt to exploit technical flaws, you'll also learn how attackers take advantage of individuals via social networking sites, and abuse

  17. Next generation CANDU plants

    International Nuclear Information System (INIS)

    Hedges, K.R.; Yu, S.K.W.

    1998-01-01

    Future CANDU designs will continue to meet the emerging design and performance requirements expected by the operating utilities. The next generation CANDU products will integrate new technologies into both the product features as well as into the engineering and construction work processes associated with delivering the products. The timely incorporation of advanced design features is the approach adopted for the development of the next generation of CANDU. AECL's current products consist of 700MW Class CANDU 6 and 900 MW Class CANDU 9. Evolutionary improvements are continuing with our CANDU products to enhance their adaptability to meet customers ever increasing need for higher output. Our key product drivers are for improved safety, environmental protection and improved cost effectiveness. Towards these goals we have made excellent progress in Research and Development and our investments are continuing in areas such as fuel channels and passive safety. Our long term focus is utilizing the fuel cycle flexibility of CANDU reactors as part of the long term energy mix

  18. Next generation toroidal devices

    International Nuclear Information System (INIS)

    Yoshikawa, Shoichi

    1998-10-01

    A general survey of the possible approach for the next generation toroidal devices was made. Either surprisingly or obviously (depending on one's view), the technical constraints along with the scientific considerations lead to a fairly limited set of systems for the most favorable approach for the next generation devices. Specifically if the magnetic field strength of 5 T or above is to be created by superconducting coils, it imposes minimum in the aspect ratio for the tokamak which is slightly higher than contemplated now for ITER design. The similar technical constraints make the minimum linear size of a stellarator large. Scientifically, it is indicated that a tokamak of 1.5 times in the linear dimension should be able to produce economically, especially if a hybrid reactor is allowed. For the next stellarator, it is strongly suggested that some kind of helical axis is necessary both for the (almost) absolute confinement of high energy particles and high stability and equilibrium beta limits. The author still favors a heliac most. Although it may not have been clearly stated in the main text, the stability afforded by the shearless layer may be exploited fully in a stellarator. (author)

  19. Next generation toroidal devices

    Energy Technology Data Exchange (ETDEWEB)

    Yoshikawa, Shoichi [Princeton Plasma Physics Lab., Princeton Univ., NJ (United States)

    1998-10-01

    A general survey of the possible approach for the next generation toroidal devices was made. Either surprisingly or obviously (depending on one`s view), the technical constraints along with the scientific considerations lead to a fairly limited set of systems for the most favorable approach for the next generation devices. Specifically if the magnetic field strength of 5 T or above is to be created by superconducting coils, it imposes minimum in the aspect ratio for the tokamak which is slightly higher than contemplated now for ITER design. The similar technical constraints make the minimum linear size of a stellarator large. Scientifically, it is indicated that a tokamak of 1.5 times in the linear dimension should be able to produce economically, especially if a hybrid reactor is allowed. For the next stellarator, it is strongly suggested that some kind of helical axis is necessary both for the (almost) absolute confinement of high energy particles and high stability and equilibrium beta limits. The author still favors a heliac most. Although it may not have been clearly stated in the main text, the stability afforded by the shearless layer may be exploited fully in a stellarator. (author)

  20. Next generation breeding.

    Science.gov (United States)

    Barabaschi, Delfina; Tondelli, Alessandro; Desiderio, Francesca; Volante, Andrea; Vaccino, Patrizia; Valè, Giampiero; Cattivelli, Luigi

    2016-01-01

    The genomic revolution of the past decade has greatly improved our understanding of the genetic make-up of living organisms. The sequencing of crop genomes has completely changed our vision and interpretation of genome organization and evolution. Re-sequencing allows the identification of an unlimited number of markers as well as the analysis of germplasm allelic diversity based on allele mining approaches. High throughput marker technologies coupled with advanced phenotyping platforms provide new opportunities for discovering marker-trait associations which can sustain genomic-assisted breeding. The availability of genome sequencing information is enabling genome editing (site-specific mutagenesis), to obtain gene sequences desired by breeders. This review illustrates how next generation sequencing-derived information can be used to tailor genomic tools for different breeders' needs to revolutionize crop improvement. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

  1. Next generation vaccines.

    Science.gov (United States)

    Riedmann, Eva M

    2011-07-01

    In February this year, about 100 delegates gathered for three days in Vienna (Austria) for the Next Generation Vaccines conference. The meeting held in the Vienna Hilton Hotel from 23rd-25th February 2011 had a strong focus on biotech and industry. The conference organizer Jacob Fleming managed to put together a versatile program ranging from the future generation of vaccines to manufacturing, vaccine distribution and delivery, to regulatory and public health issues. Carefully selected top industry experts presented first-hand experience and shared solutions for overcoming the latest challenges in the field of vaccinology. The program also included several case study presentations on novel vaccine candidates in different stages of development. An interactive pre-conference workshop as well as interactive panel discussions during the meeting allowed all delegates to gain new knowledge and become involved in lively discussions on timely, interesting and sometimes controversial topics related to vaccines.

  2. Next Generation Science Partnerships

    Science.gov (United States)

    Magnusson, J.

    2016-02-01

    I will provide an overview of the Next Generation Science Standards (NGSS) and demonstrate how scientists and educators can use these standards to strengthen and enhance their collaborations. The NGSS are rich in content and practice and provide all students with an internationally-benchmarked science education. Using these state-led standards to guide outreach efforts can help develop and sustain effective and mutually beneficial teacher-researcher partnerships. Aligning outreach with the three dimensions of the standards can help make research relevant for target audiences by intentionally addressing the science practices, cross-cutting concepts, and disciplinary core ideas of the K-12 science curriculum that drives instruction and assessment. Collaborations between researchers and educators that are based on this science framework are more sustainable because they address the needs of both scientists and educators. Educators are better able to utilize science content that aligns with their curriculum. Scientists who learn about the NGSS can better understand the frameworks under which educators work, which can lead to more extensive and focused outreach with teachers as partners. Based on this model, the International Ocean Discovery Program (IODP) develops its education materials in conjunction with scientists and educators to produce accurate, standards-aligned activities and curriculum-based interactions with researchers. I will highlight examples of IODP's current, successful teacher-researcher collaborations that are intentionally aligned with the NGSS.

  3. Next-Generation Pathology.

    Science.gov (United States)

    Caie, Peter D; Harrison, David J

    2016-01-01

    The field of pathology is rapidly transforming from a semiquantitative and empirical science toward a big data discipline. Large data sets from across multiple omics fields may now be extracted from a patient's tissue sample. Tissue is, however, complex, heterogeneous, and prone to artifact. A reductionist view of tissue and disease progression, which does not take this complexity into account, may lead to single biomarkers failing in clinical trials. The integration of standardized multi-omics big data and the retention of valuable information on spatial heterogeneity are imperative to model complex disease mechanisms. Mathematical modeling through systems pathology approaches is the ideal medium to distill the significant information from these large, multi-parametric, and hierarchical data sets. Systems pathology may also predict the dynamical response of disease progression or response to therapy regimens from a static tissue sample. Next-generation pathology will incorporate big data with systems medicine in order to personalize clinical practice for both prognostic and predictive patient care.

  4. Next generation PWR

    International Nuclear Information System (INIS)

    Tanaka, Toshihiko; Fukuda, Toshihiko; Usui, Shuji

    2001-01-01

    Development of LWR for power generation in Japan has been intended to upgrade its reliability, safety, operability, maintenance and economy as well as to increase its capacity in order, since nuclear power generation for commercial use was begun on 1970, to steadily increase its generation power. And, in Japan, ABWR (advanced BWR) of the most promising LWR in the world, was already used actually and APWR (advanced PWR) with the largest output in the world is also at a step of its actual use. And, development of the APWR in Japan was begun on 1980s, and is at a step of plan on construction of its first machine at early of this century. However, by large change of social affairs, economy of nuclear power generation is extremely required, to be positioned at an APWR improved development reactor promoted by collaboration of five PWR generation companies and the Mitsubishi Electric Co., Ltd. Therefore, on its development, investigation on effect of change in social affairs on nuclear power stations was at first carried out, to establish a design requirement for the next generation PWR. Here were described on outline, reactor core design, safety concept, and safety evaluation of APWR+ and development of an innovative PWR. (G.K.)

  5. Next Generation Summer School

    Science.gov (United States)

    Eugenia, Marcu

    2013-04-01

    On 21.06.2010 the "Next Generation" Summer School has opened the doors for its first students. They were introduced in the astronomy world by astronomical observations, astronomy and radio-astronomy lectures, laboratory projects meant to initiate them into modern radio astronomy and radio communications. The didactic programme was structure as fallowing: 1) Astronomical elements from the visible spectrum (lectures + practical projects) 2) Radio astronomy elements (lectures + practical projects) 3) Radio communication base (didactic- recreative games) The students and professors accommodation was at the Agroturistic Pension "Popasul Iancului" situated at 800m from the Marisel Observatory. First day (summer solstice day) began with a practical activity: determination of the meridian by measurements of the shadow (the direction of one vertical alignment, when it has the smallest length). The experiment is very instructive and interesting because combines notions of physics, spatial geometry and basic astronomy elements. Next day the activities took place in four stages: the students processed the experimental data obtained on first day (on sheets of millimetre paper they represented the length of the shadow alignments according the time), each team realised its own sun quadrant, point were given considering the design and functionality of these quadrant, the four teams had to mimic important constellations on carton boards with phosphorescent sticky stars and the students, accompanied by the professors took a hiking trip to the surroundings, marking the interest point coordinates, using a GPS to establish the geographical coronations and at the end of the day the students realised a small map of central Marisel area based on the GPS data. On the third day, the students were introduced to basic notions of radio astronomy, the principal categories of artificial Earth satellites: low orbit satellites (LEO), Medium orbit satellites (MEO) and geostationary satellites (GEO

  6. Next Generation Wind Turbine

    Energy Technology Data Exchange (ETDEWEB)

    Cheraghi, S. Hossein [Western New England Univ., Springfield, MA (United States); Madden, Frank [FloDesign Wind Turbine Corp., Waltham, MA (United States)

    2012-09-01

    The goal of this collaborative effort between Western New England University's College of Engineering and FloDesign Wind Turbine (FDWT) Corporation to wok on a novel areodynamic concept that could potentially lead to the next generation of wind turbines. Analytical studies and early scale model tests of FDWT's Mixer/Ejector Wind Turbine (MEWT) concept, which exploits jet-age advanced fluid dynamics, indicate that the concept has the potential to significantly reduce the cost of electricity over conventional Horizontal Axis Wind Turbines while reducing land usage. This project involved the design, fabrication, and wind tunnel testing of components of MEWT to provide the research and engineering data necessary to validate the design iterations and optimize system performance. Based on these tests, a scale model prototype called Briza was designed, fabricated, installed and tested on a portable tower to investigate and improve the design system in real world conditions. The results of these scale prototype efforts were very promising and have contributed significantly to FDWT's ongoing development of a product scale wind turbine for deployment in multiple locations around the U.S. This research was mutually beneficial to Western New England University, FDWT, and the DOE by utilizing over 30 student interns and a number of faculty in all efforts. It brought real-world wind turbine experience into the classroom to further enhance the Green Engineering Program at WNEU. It also provided on-the-job training to many students, improving their future employment opportunities, while also providing valuable information to further advance FDWT's mixer-ejector wind turbine technology, creating opportunities for future project innovation and job creation.

  7. Next generation information systems

    Energy Technology Data Exchange (ETDEWEB)

    Limback, Nathan P [Los Alamos National Laboratory; Medina, Melanie A [Los Alamos National Laboratory; Silva, Michelle E [Los Alamos National Laboratory

    2010-01-01

    The Information Systems Analysis and Development (ISAD) Team of the Safeguards Systems Group at Los Alamos National Laboratory (LANL) has been developing web based information and knowledge management systems for sixteen years. Our vision is to rapidly and cost effectively provide knowledge management solutions in the form of interactive information systems that help customers organize, archive, post and retrieve nonproliferation and safeguards knowledge and information vital to their success. The team has developed several comprehensive information systems that assist users in the betterment and growth of their organizations and programs. Through our information systems, users are able to streamline operations, increase productivity, and share and access information from diverse geographic locations. The ISAD team is also producing interactive visual models. Interactive visual models provide many benefits to customers beyond the scope of traditional full-scale modeling. We have the ability to simulate a vision that a customer may propose, without the time constraints of traditional engineering modeling tools. Our interactive visual models can be used to access specialized training areas, controlled areas, and highly radioactive areas, as well as review site-specific training for complex facilities, and asset management. Like the information systems that the ISAD team develops, these models can be shared and accessed from any location with access to the internet. The purpose of this paper is to elaborate on the capabilities of information systems and interactive visual models as well as consider the possibility of combining the two capabilities to provide the next generation of infonnation systems. The collection, processing, and integration of data in new ways can contribute to the security of the nation by providing indicators and information for timely action to decrease the traditional and new nuclear threats. Modeling and simulation tied to comprehensive

  8. Transcriptome-based gene profiling provides novel insights into the characteristics of radish root response to Cr stress with next-generation sequencing

    Directory of Open Access Journals (Sweden)

    Yang eXie

    2015-03-01

    Full Text Available Radish (Raphanus sativus L. is an important worldwide root vegetable crop with high nutrient values and is adversely affected by non-essential heavy metals including chromium (Cr. Little is known about the molecular mechanism underlying Cr stress response in radish. In this study, RNA-Seq technique was employed to identify differentially expressed genes (DEGs under Cr stress. Based on de novo transcriptome assembly, there were 30,676 unigenes representing 60,881 transcripts isolated from radish root under Cr stress. Differential gene analysis revealed that 2,985 uingenes were significantly differentially expressed between Cr-free (CK and Cr-treated (Cr600 libraries, among which 1,424 were up-regulated and 1,561 down-regulated. Gene ontology (GO analysis revealed that these DEGs were mainly involved in primary metabolic process, response to abiotic stimulus, cellular metabolic process and small molecule metabolic process. Kyoto encyclopedia of genes and genomes (KEGG enrichment analysis showed that the DEGs were mainly involved in protein processing in endoplasmic reticulum, starch and sucrose metabolism, amino acid metabolism, glutathione metabolism, drug and xenobiotics by cytochrome P450 metabolism. RT-qPCR analysis showed that the expression patterns of 12 randomly selected DEGs were highly accordant with the results from RNA-seq. Furthermore, many candidate genes including signaling protein kinases, transcription factors and metal transporters, chelate compound biosynthesis and antioxidant system, were involved in defense and detoxification mechanisms of Cr stress response regulatory networks. These results would provide novel insight into molecular mechanism underlying plant responsiveness to Cr stress and facilitate further genetic manipulation on Cr uptake and accumulation in radish.

  9. Next Generation Sequencing and Transcriptome Analysis Predicts Biosynthetic Pathway of Sennosides from Senna (Cassia angustifolia Vahl., a Non-Model Plant with Potent Laxative Properties.

    Directory of Open Access Journals (Sweden)

    Nagaraja Reddy Rama Reddy

    Full Text Available Senna (Cassia angustifolia Vahl. is a world's natural laxative medicinal plant. Laxative properties are due to sennosides (anthraquinone glycosides natural products. However, little genetic information is available for this species, especially concerning the biosynthetic pathways of sennosides. We present here the transcriptome sequencing of young and mature leaf tissue of Cassia angustifolia using Illumina MiSeq platform that resulted in a total of 6.34 Gb of raw nucleotide sequence. The sequence assembly resulted in 42230 and 37174 transcripts with an average length of 1119 bp and 1467 bp for young and mature leaf, respectively. The transcripts were annotated using NCBI BLAST with 'green plant database (txid 33090', Swiss Prot, Kyoto Encylcopedia of Genes & Genomes (KEGG, Cluster of Orthologous Gene (COG and Gene Ontology (GO. Out of the total transcripts, 40138 (95.0% and 36349 (97.7% from young and mature leaf, respectively, were annotated by BLASTX against green plant database of NCBI. We used InterProscan to see protein similarity at domain level, a total of 34031 (young leaf and 32077 (mature leaf transcripts were annotated against the Pfam domains. All transcripts from young and mature leaf were assigned to 191 KEGG pathways. There were 166 and 159 CDS, respectively, from young and mature leaf involved in metabolism of terpenoids and polyketides. Many CDS encoding enzymes leading to biosynthesis of sennosides were identified. A total of 10,763 CDS differentially expressing in both young and mature leaf libraries of which 2,343 (21.7% CDS were up-regulated in young compared to mature leaf. Several differentially expressed genes found functionally associated with sennoside biosynthesis. CDS encoding for many CYPs and TF families were identified having probable roles in metabolism of primary as well as secondary metabolites. We developed SSR markers for molecular breeding of senna. We have identified a set of putative genes involved in

  10. Next Generation Sequencing and Transcriptome Analysis Predicts Biosynthetic Pathway of Sennosides from Senna (Cassia angustifolia Vahl.), a Non-Model Plant with Potent Laxative Properties.

    Science.gov (United States)

    Rama Reddy, Nagaraja Reddy; Mehta, Rucha Harishbhai; Soni, Palak Harendrabhai; Makasana, Jayanti; Gajbhiye, Narendra Athamaram; Ponnuchamy, Manivel; Kumar, Jitendra

    2015-01-01

    Senna (Cassia angustifolia Vahl.) is a world's natural laxative medicinal plant. Laxative properties are due to sennosides (anthraquinone glycosides) natural products. However, little genetic information is available for this species, especially concerning the biosynthetic pathways of sennosides. We present here the transcriptome sequencing of young and mature leaf tissue of Cassia angustifolia using Illumina MiSeq platform that resulted in a total of 6.34 Gb of raw nucleotide sequence. The sequence assembly resulted in 42230 and 37174 transcripts with an average length of 1119 bp and 1467 bp for young and mature leaf, respectively. The transcripts were annotated using NCBI BLAST with 'green plant database (txid 33090)', Swiss Prot, Kyoto Encylcopedia of Genes & Genomes (KEGG), Cluster of Orthologous Gene (COG) and Gene Ontology (GO). Out of the total transcripts, 40138 (95.0%) and 36349 (97.7%) from young and mature leaf, respectively, were annotated by BLASTX against green plant database of NCBI. We used InterProscan to see protein similarity at domain level, a total of 34031 (young leaf) and 32077 (mature leaf) transcripts were annotated against the Pfam domains. All transcripts from young and mature leaf were assigned to 191 KEGG pathways. There were 166 and 159 CDS, respectively, from young and mature leaf involved in metabolism of terpenoids and polyketides. Many CDS encoding enzymes leading to biosynthesis of sennosides were identified. A total of 10,763 CDS differentially expressing in both young and mature leaf libraries of which 2,343 (21.7%) CDS were up-regulated in young compared to mature leaf. Several differentially expressed genes found functionally associated with sennoside biosynthesis. CDS encoding for many CYPs and TF families were identified having probable roles in metabolism of primary as well as secondary metabolites. We developed SSR markers for molecular breeding of senna. We have identified a set of putative genes involved in various

  11. The Next Generation Photoinjector

    Energy Technology Data Exchange (ETDEWEB)

    Palmer, Dennis Thomas; /Stanford U., Appl. Phys. Dept.

    2005-09-12

    This dissertation will elucidate the design, construction, theory, and operation of the Next Generation Photoinjector (NGP). This photoinjector is comprised of the BNL/SLAC/UCLA 1.6 cell symmetrized S-band photocathode radio frequency (rf) electron gun and a single emittance-compensation solenoidal magnet. This photoinjector is a prototype for the Linear Coherent Light Source X-ray Free Electron Laser operating in the 1.5 {angstrom} range. Simulations indicate that this photoinjector is capable of producing a 1nC electron bunch with transverse normalized emittance less than 1 {pi} mm mrad were the cathode is illuminated with a 10 psec longitudinal flat top pulse. Using a Gaussian longitudinal laser profile with a full width half maximum (FWHM) of 10 psec, simulation indicates that the NGP is capable of producing a normalized rms emittance of 2.50 {pi} mm mrad at 1 nC. Using the removable cathode plate we have studied the quantum efficiency (QE) of both copper and magnesium photo-cathodes. The Cu QE was found to be 4.5 x 10{sup -5} with a 25% variation in the QE across the emitting surface of the cathode, while supporting a field gradient of 125 MV/m. At low charge, the transverse normalized rms emittance, {epsilon}{sub n,rms}, produced by the NGP is {epsilon}{sub n,rms} = 1.2 {pi} mm mrad for Q{sub T} = 0.3 nC. The 95% electron beam bunch length was measured to 10.9 psec. The emittance due to the finite magnetic field at the cathode has been studied. The scaling of this magnetic emittance term as a function of cathode magnetic field was found to be 0.01 {pi} mm mrad per Gauss. The 1.6 cell rf gun has been designed to reduce the dipole field asymmetry of the longitudinal accelerating field. Low level rf measurements show that this has in fact been accomplished, with an order of magnitude decrease in the dipole field. High power beam studies also show that the dipole field has been decreased. An upper limit of the intrinsic non-reducible thermal emittance of a

  12. NEXT GENERATION TURBINE PROGRAM

    Energy Technology Data Exchange (ETDEWEB)

    William H. Day

    2002-05-03

    The Next Generation Turbine (NGT) Program's technological development focused on a study of the feasibility of turbine systems greater than 30 MW that offer improvement over the 1999 state-of-the-art systems. This program targeted goals of 50 percent turndown ratios, 15 percent reduction in generation cost/kW hour, improved service life, reduced emissions, 400 starts/year with 10 minutes to full load, and multiple fuel usage. Improvement in reliability, availability, and maintainability (RAM), while reducing operations, maintenance, and capital costs by 15 percent, was pursued. This program builds on the extensive low emissions stationary gas turbine work being carried out by Pratt & Whitney (P&W) for P&W Power Systems (PWPS), which is a company under the auspices of the United Technologies Corporation (UTC). This study was part of the overall Department of Energy (DOE) NGT Program that extends out to the year 2008. A follow-on plan for further full-scale component hardware testing is conceptualized for years 2002 through 2008 to insure a smooth and efficient transition to the marketplace for advanced turbine design and cycle technology. This program teamed the National Energy Technology Laboratory (NETL), P&W, United Technologies Research Center (UTRC), kraftWork Systems Inc., a subcontractor on-site at UTRC, and Multiphase Power and Processing Technologies (MPPT), an off-site subcontractor. Under the auspices of the NGT Program, a series of analyses were performed to identify the NGT engine system's ability to serve multiple uses. The majority were in conjunction with a coal-fired plant, or used coal as the system fuel. Identified also was the ability of the NGT system to serve as the basis of an advanced performance cycle: the humid air turbine (HAT) cycle. The HAT cycle is also used with coal gasification in an integrated cycle HAT (IGHAT). The NGT systems identified were: (1) Feedwater heating retrofit to an existing coal-fired steam plant, which

  13. De novo transcriptome assembly associated with fumonisin production by the rice pathogen Fusarium fujikuroi

    Directory of Open Access Journals (Sweden)

    Keerthi S. Guruge

    2018-06-01

    Full Text Available The present study employed a next-generation sequencing method to assemble a de novo transcriptome database designed to distinguish gene expression changes exhibited by the fumonisin-producing fungus Fusarium fujikuroi when grown under ‘fumonisin-producing’ compared to ‘non-fumonisin-producing’ conditions. The raw data of this study have been deposited at DNA Data Bank of Japan (DDBJ under the accession ID DRA006146. Keywords: Fusarium fujikuroi, Fumonisin, Next-generation sequencing, Transcriptome, Gene-expression

  14. Next Generation Microshutter Arrays Project

    Data.gov (United States)

    National Aeronautics and Space Administration — We propose to develop the next generation MicroShutter Array (MSA) as a multi-object field selector for missions anticipated in the next two decades. For many...

  15. Project control - the next generation

    International Nuclear Information System (INIS)

    Iorii, V.F.; McKinnon, B.L.

    1993-01-01

    The Yucca Mountain Site Characterization Project (YMP) is the U.S. Department of Energy's (DOE) second largest Major System Acquisition Project. We have developed an integrated planning and control system (called PACS) that we believe represents the 'Next Generation' in project control. PACS integrates technical scope, cost, and schedule information for over 50 participating organizations and produces performances measurement reports for science and engineering managers at all levels. Our 'Next Generation' project control too, PACS, has been found to be in compliance with the new DOE Project Control System Guidelines. Additionally, the nuclear utility oversight group of the Edison Electric Institute has suggested PACS be used as a model for other civilian radioactive waste management projects. A 'Next Generation' project control tool will be necessary to do science in the 21st century

  16. Technical presentation: Next Generation Oscilloscopes

    CERN Multimedia

    PH Department

    2011-01-01

      Rohde & Schwarz "Next Generation Oscilloscopes" - Introduction and Presentation Agenda: Wednesday 23 March  -  09:30 to 11:30 (open end) Bldg. 13-2-005 Language: English 09.30 Presentation "Next Generation Oscilloscopes" from Rohde & Schwarz RTO / RTM in theory and practice Gerard Walker 10.15 Technical design details from R&D Dr. Markus Freidhof 10.45 Scope and Probe Roadmap (confidential) Guido Schulze 11.00 Open Discussion Feedback, first impression, wishes, needs and requirements from CERN All 11.30 Expert Talks, Hands on All Mr. Dr. Markus Freidhof, Head of R&D Oscilloscopes, Rohde & Schwarz, Germany; Mr. Guido Schulze, ...

  17. The Next Generation Science Standards

    Science.gov (United States)

    Pruitt, Stephen L.

    2015-01-01

    The Next Generation Science Standards (NGSS Lead States 2013) were released almost two years ago. Work tied to the NGSS, their adoption, and implementation continues to move forward around the country. Stephen L. Pruitt, senior vice president, science, at Achieve, an independent, nonpartisan, nonprofit education reform organization that was a lead…

  18. Next generation light water reactors

    International Nuclear Information System (INIS)

    Omoto, Akira

    1992-01-01

    In the countries where the new order of nuclear reactors has ceased, the development of the light water reactors of new type has been discussed, aiming at the revival of nuclear power. Also in Japan, since it is expected that light water reactors continue to be the main power reactor for long period, the technology of light water reactors of next generation has been discussed. For the development of nuclear power, extremely long lead time is required. The light water reactors of next generation now in consideration will continue to be operated till the middle of the next century, therefore, they must take in advance sufficiently the needs of the age. The improvement of the way men and the facilities should be, the simple design, the flexibility to the trend of fuel cycle and so on are required for the light water reactors of next generation. The trend of the development of next generation light water reactors is discussed. The construction of an ABWR was started in September, 1991, as No. 6 plant in Kashiwazaki Kariwa Power Station. (K.I.)

  19. Next Generation Microchannel Heat Exchangers

    CERN Document Server

    Ohadi, Michael; Dessiatoun, Serguei; Cetegen, Edvin

    2013-01-01

    In Next Generation Microchannel Heat Exchangers, the authors’ focus on the new generation highly efficient heat exchangers and presentation of novel data and technical expertise not available in the open literature.  Next generation micro channels offer record high heat transfer coefficients with pressure drops much less than conventional micro channel heat exchangers. These inherent features promise fast penetration into many mew markets, including high heat flux cooling of electronics, waste heat recovery and energy efficiency enhancement applications, alternative energy systems, as well as applications in mass exchangers and chemical reactor systems. The combination of up to the minute research findings and technical know-how make this book very timely as the search for high performance heat and mass exchangers that can cut costs in materials consumption intensifies.

  20. Towards Next Generation BI Systems

    DEFF Research Database (Denmark)

    Varga, Jovan; Romero, Oscar; Pedersen, Torben Bach

    2014-01-01

    Next generation Business Intelligence (BI) systems require integration of heterogeneous data sources and a strong user-centric orientation. Both needs entail machine-processable metadata to enable automation and allow end users to gain access to relevant data for their decision making processes....... This framework is based on the findings of a survey of current user-centric approaches mainly focusing on query recommendation assistance. Finally, we discuss the benefits of the framework and present the plans for future work....

  1. Next Generation Biopharmaceuticals: Product Development.

    Science.gov (United States)

    Mathaes, Roman; Mahler, Hanns-Christian

    2018-04-11

    Therapeutic proteins show a rapid market growth. The relatively young biotech industry already represents 20 % of the total global pharma market. The biotech industry environment has traditionally been fast-pasted and intellectually stimulated. Nowadays the top ten best selling drugs are dominated by monoclonal antibodies (mABs).Despite mABs being the biggest medical breakthrough in the last 25 years, technical innovation does not stand still.The goal remains to preserve the benefits of a conventional mAB (serum half-life and specificity) whilst further improving efficacy and safety and to open new and better avenues for treating patients, e.g., improving the potency of molecules, target binding, tissue penetration, tailored pharmacokinetics, and reduced adverse effects or immunogenicity.The next generation of biopharmaceuticals can pose specific chemistry, manufacturing, and control (CMC) challenges. In contrast to conventional proteins, next-generation biopharmaceuticals often require lyophilization of the final drug product to ensure storage stability over shelf-life time. In addition, next-generation biopharmaceuticals require analytical methods that cover different ways of possible degradation patterns and pathways, and product development is a long way from being straight forward. The element of "prior knowledge" does not exist equally for most novel formats compared to antibodies, and thus the assessment of critical quality attributes (CQAs) and the definition of CQA assessment criteria and specifications is difficult, especially in early-stage development.

  2. Next generation sensors and systems

    CERN Document Server

    2016-01-01

    Written by experts in their area of research, this book has outlined the current status of the fundamentals and analytical concepts, modelling and design issues, technical details and practical applications of different types of sensors and discussed about the trends of next generation of sensors and systems happening in the area of Sensing technology. This book will be useful as a reference book for engineers and scientist especially the post-graduate students find will this book as reference book for their research on wearable sensors, devices and technologies.  .

  3. Next generation surveillance system (NGSS)

    International Nuclear Information System (INIS)

    Aparo, Massimo

    2006-01-01

    Development of 'functional requirements' for transparency systems may offer a near-term mode of regional cooperation. New requirements under development at the IAEA may provide a foundation for this potential activity. The Next Generation Surveillance System (NGSS) will become the new IAEA remote monitoring system Under new requirements the NGSS would attempt to use more commercial components to reduce cost, increase radiation survivability and further increase reliability. The NGSS must be available in two years due to rapidly approaching obsolescence in the existing DCM family. (author)

  4. Next-Generation Tools For Next-Generation Surveys

    Science.gov (United States)

    Murray, S. G.

    2017-04-01

    The next generation of large-scale galaxy surveys, across the electromagnetic spectrum, loom on the horizon as explosively game-changing datasets, in terms of our understanding of cosmology and structure formation. We are on the brink of a torrent of data that is set to both confirm and constrain current theories to an unprecedented level, and potentially overturn many of our conceptions. One of the great challenges of this forthcoming deluge is to extract maximal scientific content from the vast array of raw data. This challenge requires not only well-understood and robust physical models, but a commensurate network of software implementations with which to efficiently apply them. The halo model, a semi-analytic treatment of cosmological spatial statistics down to nonlinear scales, provides an excellent mathematical framework for exploring the nature of dark matter. This thesis presents a next-generation toolkit based on the halo model formalism, intended to fulfil the requirements of next-generation surveys. Our toolkit comprises three tools: (i) hmf, a comprehensive and flexible calculator for halo mass functions (HMFs) within extended Press-Schechter theory, (ii) the MRP distribution for extremely efficient analytic characterisation of HMFs, and (iii) halomod, an extension of hmf which provides support for the full range of halo model components. In addition to the development and technical presentation of these tools, we apply each to the task of physical modelling. With hmf, we determine the precision of our knowledge of the HMF, due to uncertainty in our knowledge of the cosmological parameters, over the past decade of cosmic microwave background (CMB) experiments. We place rule-of-thumb uncertainties on the predicted HMF for the Planck cosmology, and find that current limits on the precision are driven by modeling uncertainties rather than those from cosmological parameters. With the MRP, we create and test a method for robustly fitting the HMF to observed

  5. Rhamnolipids--next generation surfactants?

    Science.gov (United States)

    Müller, Markus Michael; Kügler, Johannes H; Henkel, Marius; Gerlitzki, Melanie; Hörmann, Barbara; Pöhnlein, Martin; Syldatk, Christoph; Hausmann, Rudolf

    2012-12-31

    The demand for bio-based processes and materials in the petrochemical industry has significantly increased during the last decade because of the expected running out of petroleum. This trend can be ascribed to three main causes: (1) the increased use of renewable resources for chemical synthesis of already established product classes, (2) the replacement of chemical synthesis of already established product classes by new biotechnological processes based on renewable resources, and (3) the biotechnological production of new molecules with new features or better performances than already established comparable chemically synthesized products. All three approaches are currently being pursued for surfactant production. Biosurfactants are a very promising and interesting substance class because they are based on renewable resources, sustainable, and biologically degradable. Alkyl polyglycosides are chemically synthesized biosurfactants established on the surfactant market. The first microbiological biosurfactants on the market were sophorolipids. Of all currently known biosurfactants, rhamnolipids have the highest potential for becoming the next generation of biosurfactants introduced on the market. Although the metabolic pathways and genetic regulation of biosynthesis are known qualitatively, the quantitative understanding relevant for bioreactor cultivation is still missing. Additionally, high product titers have been exclusively described with vegetable oil as sole carbon source in combination with Pseudomonas aeruginosa strains. Competitive productivity is still out of reach for heterologous hosts or non-pathogenic natural producer strains. Thus, on the one hand there is a need to gain a deeper understanding of the regulation of rhamnolipid production on process and cellular level during bioreactor cultivations. On the other hand, there is a need for metabolizable renewable substrates, which do not compete with food and feed. A sustainable bioeconomy approach should

  6. Designing Next Generation Telecom Regulation

    DEFF Research Database (Denmark)

    Henten, Anders; Samarajiva, Rohan

    – ICT convergence regulation and multisector utility regulation. Whatever structure of next generation telecom regulation is adopted, all countries will need to pay much greater attention to the need for increased coordination of policy directions and regulatory activities both across the industries......Continuously expanding applications of information and communication technologies (ICT) are transforming local, national, regional and international economies into network economies, the foundation for information societies. They are being built upon expanded and upgraded national telecom networks...... to creating an environment to foster a massive expansion in the coverage and capabilities of the information infrastructure networks, with national telecom regulators as the key implementers of the policies of reform. The first phase of reform has focused on industry specific telecom policy and regulation...

  7. Next-Generation Sequencing Platforms

    Science.gov (United States)

    Mardis, Elaine R.

    2013-06-01

    Automated DNA sequencing instruments embody an elegant interplay among chemistry, engineering, software, and molecular biology and have built upon Sanger's founding discovery of dideoxynucleotide sequencing to perform once-unfathomable tasks. Combined with innovative physical mapping approaches that helped to establish long-range relationships between cloned stretches of genomic DNA, fluorescent DNA sequencers produced reference genome sequences for model organisms and for the reference human genome. New types of sequencing instruments that permit amazing acceleration of data-collection rates for DNA sequencing have been developed. The ability to generate genome-scale data sets is now transforming the nature of biological inquiry. Here, I provide an historical perspective of the field, focusing on the fundamental developments that predated the advent of next-generation sequencing instruments and providing information about how these instruments work, their application to biological research, and the newest types of sequencers that can extract data from single DNA molecules.

  8. The next generation CANDU 6

    International Nuclear Information System (INIS)

    Hopwood, J.M.

    1999-01-01

    AECL's product line of CANDU 6 and CANDU 9 nuclear power plants are adapted to respond to changing market conditions, experience feedback and technological development by a continuous improvement process of design evolution. The CANDU 6 Nuclear Power Plant design is a successful family of nuclear units, with the first four units entering service in 1983, and the most recent entering service this year. A further four CANDU 6 units are under construction. Starting in 1996, a focused forward-looking development program is under way at AECL to incorporate a series of individual improvements and integrate them into the CANDU 6, leading to the evolutionary development of the next-generation enhanced CANDU 6. The CANDU 6 improvements program includes all aspects of an NPP project, including engineering tools improvements, design for improved constructability, scheduling for faster, more streamlined commissioning, and improved operating performance. This enhanced CANDU 6 product will combine the benefits of design provenness (drawing on the more than 70 reactor-years experience of the seven operating CANDU 6 units), with the advantages of an evolutionary next-generation design. Features of the enhanced CANDU 6 design include: Advanced Human Machine Interface - built around the Advanced CANDU Control Centre; Advanced fuel design - using the newly demonstrated CANFLEX fuel bundle; Improved Efficiency based on improved utilization of waste heat; Streamlined System Design - including simplifications to improve performance and safety system reliability; Advanced Engineering Tools, -- featuring linked electronic databases from 3D CADDS, equipment specification and material management; Advanced Construction Techniques - based on open top equipment installation and the use of small skid mounted modules; Options defined for Passive Heat Sink capability and low-enrichment core optimization. (author)

  9. Next Generation Geothermal Power Plants

    Energy Technology Data Exchange (ETDEWEB)

    Brugman, John; Hattar, Mai; Nichols, Kenneth; Esaki, Yuri

    1995-09-01

    A number of current and prospective power plant concepts were investigated to evaluate their potential to serve as the basis of the next generation geothermal power plant (NGGPP). The NGGPP has been envisaged as a power plant that would be more cost competitive (than current geothermal power plants) with fossil fuel power plants, would efficiently use resources and mitigate the risk of reservoir under-performance, and minimize or eliminate emission of pollutants and consumption of surface and ground water. Power plant concepts were analyzed using resource characteristics at ten different geothermal sites located in the western United States. Concepts were developed into viable power plant processes, capital costs were estimated and levelized busbar costs determined. Thus, the study results should be considered as useful indicators of the commercial viability of the various power plants concepts that were investigated. Broadly, the different power plant concepts that were analyzed in this study fall into the following categories: commercial binary and flash plants, advanced binary plants, advanced flash plants, flash/binary hybrid plants, and fossil/geothed hybrid plants. Commercial binary plants were evaluated using commercial isobutane as a working fluid; both air-cooling and water-cooling were considered. Advanced binary concepts included cycles using synchronous turbine-generators, cycles with metastable expansion, and cycles utilizing mixtures as working fluids. Dual flash steam plants were used as the model for the commercial flash cycle. The following advanced flash concepts were examined: dual flash with rotary separator turbine, dual flash with steam reheater, dual flash with hot water turbine, and subatmospheric flash. Both dual flash and binary cycles were combined with other cycles to develop a number of hybrid cycles: dual flash binary bottoming cycle, dual flash backpressure turbine binary cycle, dual flash gas turbine cycle, and binary gas turbine

  10. Next generation HOM-damping

    Science.gov (United States)

    Marhauser, Frank

    2017-06-01

    Research and development for superconducting radio-frequency cavities has made enormous progress over the last decades from the understanding of theoretical limitations to the industrial mass fabrication of cavities for large-scale particle accelerators. Key technologies remain hot topics due to continuously growing demands on cavity performance, particularly when in pursuit of high quality beams at higher beam currents or higher luminosities than currently achievable. This relates to higher order mode (HOM) damping requirements. Meeting the desired beam properties implies avoiding coupled multi-bunch or beam break-up instabilities depending on the machine and beam parameters that will set the acceptable cavity impedance thresholds. The use of cavity HOM-dampers is crucial to absorb the wakefields, comprised by all beam-induced cavity Eigenmodes, to beam-dynamically safe levels and to reduce the heat load at cryogenic temperature. Cavity damping concepts may vary, but are principally based on coaxial and waveguide couplers as well as beam line absorbers or any combination. Next generation energy recovery linacs and circular colliders call for cavities with strong HOM-damping that can exceed the state-of-the-art, while the operating mode efficiency shall not be significantly compromised concurrently. This imposes major challenges given the rather limited damping concepts. A detailed survey of established cavities is provided scrutinizing the achieved damping performance, shortcomings, and potential improvements. The scaling of the highest passband mode impedances is numerically evaluated in dependence on the number of cells for a single-cell up to a nine-cell cavity, which reveals the increased probability of trapped modes. This is followed by simulations for single-cell and five-cell cavities, which incorporate multiple damping schemes to assess the most efficient concepts. The usage and viability of on-cell dampers is elucidated for the single-cell cavity since it

  11. Next-generation Digital Earth.

    Science.gov (United States)

    Goodchild, Michael F; Guo, Huadong; Annoni, Alessandro; Bian, Ling; de Bie, Kees; Campbell, Frederick; Craglia, Max; Ehlers, Manfred; van Genderen, John; Jackson, Davina; Lewis, Anthony J; Pesaresi, Martino; Remetey-Fülöpp, Gábor; Simpson, Richard; Skidmore, Andrew; Wang, Changlin; Woodgate, Peter

    2012-07-10

    A speech of then-Vice President Al Gore in 1998 created a vision for a Digital Earth, and played a role in stimulating the development of a first generation of virtual globes, typified by Google Earth, that achieved many but not all the elements of this vision. The technical achievements of Google Earth, and the functionality of this first generation of virtual globes, are reviewed against the Gore vision. Meanwhile, developments in technology continue, the era of "big data" has arrived, the general public is more and more engaged with technology through citizen science and crowd-sourcing, and advances have been made in our scientific understanding of the Earth system. However, although Google Earth stimulated progress in communicating the results of science, there continue to be substantial barriers in the public's access to science. All these factors prompt a reexamination of the initial vision of Digital Earth, and a discussion of the major elements that should be part of a next generation.

  12. What can next generation sequencing do for you? Next generation sequencing as a valuable tool in plant research

    OpenAIRE

    Bräutigam, Andrea; Gowik, Udo

    2010-01-01

    Next generation sequencing (NGS) technologies have opened fascinating opportunities for the analysis of plants with and without a sequenced genome on a genomic scale. During the last few years, NGS methods have become widely available and cost effective. They can be applied to a wide variety of biological questions, from the sequencing of complete eukaryotic genomes and transcriptomes, to the genome-scale analysis of DNA-protein interactions. In this review, we focus on the use of NGS for pla...

  13. NEXT GENERATION TURBINE SYSTEM STUDY

    Energy Technology Data Exchange (ETDEWEB)

    Frank Macri

    2002-02-28

    Rolls-Royce has completed a preliminary design and marketing study under a Department of Energy (DOE) cost shared contract (DE-AC26-00NT40852) to analyze the feasibility of developing a clean, high efficiency, and flexible Next Generation Turbine (NGT) system to meet the power generation market needs of the year 2007 and beyond. Rolls-Royce evaluated the full range of its most advanced commercial aerospace and aeroderivative engines alongside the special technologies necessary to achieve the aggressive efficiency, performance, emissions, economic, and flexibility targets desired by the DOE. Heavy emphasis was placed on evaluating the technical risks and the economic viability of various concept and technology options available. This was necessary to ensure the resulting advanced NGT system would provide extensive public benefits and significant customer benefits without introducing unacceptable levels of technical and operational risk that would impair the market acceptance of the resulting product. Two advanced cycle configurations were identified as offering significant advantages over current combined cycle products available in the market. In addition, balance of plant (BOP) technologies, as well as capabilities to improve the reliability, availability, and maintainability (RAM) of industrial gas turbine engines, have been identified. A customer focused survey and economic analysis of a proposed Rolls-Royce NGT product configuration was also accomplished as a part of this research study. The proposed Rolls-Royce NGT solution could offer customers clean, flexible power generation systems with very high efficiencies, similar to combined cycle plants, but at a much lower specific cost, similar to those of simple cycle plants.

  14. The next generation safeguards initiative

    International Nuclear Information System (INIS)

    Tobey, William

    2008-01-01

    NGSI or the Next Generation Safeguards Initiative is designed to revitalize the U.S. safeguards technical base, as well as invest in human resources, and to mobilize our primary asset - the U.S. National Laboratories - as well as industry and academia to restore capabilities. While NGSI is a U.S. effort it is intended to serve as a catalyst for a much broader commitment to international safeguards in partnership with the IAEA and other countries. Initiatives over the last years include such as the Proliferation Security Initiative, UN Security Council Resolution 1540, the Global Initiative to Combat Nuclear Terrorism, and initiatives of the G-8 and NSG to discourage the spread of enrichment and reprocessing. NGSI augments this agenda by providing a means to strengthen the technical and political underpinnings of IAEA safeguards. Priorities and envisioned activities under NGSI are the following. (1) Cooperation with IAEA and others to promote universal adoption of safeguards agreements and the Additional Protocol including greater information sharing between member states and the IAEA, investigation of weaponization and procurement activities, and options to strengthen the state-level approach to safeguards. (2) NGSI anticipates the deployment of new types of reactors and fuel cycle facilities, as well as the need to use limited safeguards resources effectively and efficiently, especially in plants that pose the largest burden specifically complex, bulk-handling facilities. (3) NGSI will encourage a generational improvement in current safeguards technologies including improvement of precision and speed of nuclear measurements, performance of real-time process monitoring and surveillance in unattended mode, enabling in-field, pre-screening and analysis of nuclear and environmental samples, and collection, integration, analysis and archiving safeguards-relevant information from all available sources.(4) NGSI will address human capital management. Training and

  15. A microarray analysis of the rice transcriptome and its comparison to Arabidopsis

    DEFF Research Database (Denmark)

    Ma, Ligeng; Chen, Chen; Liu, Xigang

    2005-01-01

    Arabidopsis and rice are the only two model plants whose finished phase genome sequence has been completed. Here we report the construction of an oligomer microarray based on the presently known and predicted gene models in the rice genome. This microarray was used to analyze the transcriptional...... with similar genome-wide surveys of the Arabidopsis transcriptome, our results indicate that similar proportions of the two genomes are expressed in their corresponding organ types. A large percentage of the rice gene models that lack significant Arabidopsis homologs are expressed. Furthermore, the expression...... patterns of rice and Arabidopsis best-matched homologous genes in distinct functional groups indicate dramatic differences in their degree of conservation between the two species. Thus, this initial comparative analysis reveals some basic similarities and differences between the Arabidopsis and rice...

  16. Comparative transcriptome analysis of two rice varieties in response to rice stripe virus and small brown planthoppers during early interaction.

    Directory of Open Access Journals (Sweden)

    Wenjing Zheng

    Full Text Available Rice stripe, a virus disease, transmitted by a small brown planthopper (SBPH, has greatly reduced production of japonica rice in East Asia, especially in China. Although we have made great progress in mapping resistance genes, little is known about the mechanism of resistance. By de novo transcriptome assembling, we gained sufficient transcript data to analyze changes in gene expression of early interaction in response to SBPH and RSV infection in rice. Respectively 648 and 937 DEGs were detected from the disease-resistant (Liaonong 979 and the susceptible (Fengjin varieties, most of which were up-regulated. We found 37 genes related to insect resistance, which mainly included genes for jasmonate-induced protein, TIFY protein, lipoxygenase, as well as trypsin inhibitor genes and transcription factor genes. In the interaction process between RSV and rice, 87 genes were thought to be related to RSV resistance; these primarily included 12 peroxidase biosynthesis genes, 12 LRR receptor-like protein kinase genes, 6 genes coding pathogenesis-related proteins, 4 glycine-rich cell wall structural protein genes, 2 xyloglucan hydrolase genes and a cellulose synthase. The results indicate that the rice-pathogen interaction happened both in disease-resistant and susceptible varieties, and some genes related to JA biosynthesis played key roles in the interaction between SBPHs and rice. When rice was infected by RSV a hypersensitive reaction (HR in the disease-resistant variety was suppressed, which resulted from an increase in peroxidase expression and down-regulation of LRR receptor-like protein kinase and pathogenesis-related proteins, while, the changes of peroxidase biosynthesis, glycine-rich cell wall structural protein, cellulose synthase and xyloglucan endotransglucosylase/hydrolase could lead to the strengthening of physical barriers of rice, which may be an important resistance mechanism to RSV in rice.

  17. Comparative transcriptome analysis of two rice varieties in response to rice stripe virus and small brown planthoppers during early interaction.

    Science.gov (United States)

    Zheng, Wenjing; Ma, Li; Zhao, Jiaming; Li, Zhiqiang; Sun, Fuyu; Lu, Xiaochun

    2013-01-01

    Rice stripe, a virus disease, transmitted by a small brown planthopper (SBPH), has greatly reduced production of japonica rice in East Asia, especially in China. Although we have made great progress in mapping resistance genes, little is known about the mechanism of resistance. By de novo transcriptome assembling, we gained sufficient transcript data to analyze changes in gene expression of early interaction in response to SBPH and RSV infection in rice. Respectively 648 and 937 DEGs were detected from the disease-resistant (Liaonong 979) and the susceptible (Fengjin) varieties, most of which were up-regulated. We found 37 genes related to insect resistance, which mainly included genes for jasmonate-induced protein, TIFY protein, lipoxygenase, as well as trypsin inhibitor genes and transcription factor genes. In the interaction process between RSV and rice, 87 genes were thought to be related to RSV resistance; these primarily included 12 peroxidase biosynthesis genes, 12 LRR receptor-like protein kinase genes, 6 genes coding pathogenesis-related proteins, 4 glycine-rich cell wall structural protein genes, 2 xyloglucan hydrolase genes and a cellulose synthase. The results indicate that the rice-pathogen interaction happened both in disease-resistant and susceptible varieties, and some genes related to JA biosynthesis played key roles in the interaction between SBPHs and rice. When rice was infected by RSV a hypersensitive reaction (HR) in the disease-resistant variety was suppressed, which resulted from an increase in peroxidase expression and down-regulation of LRR receptor-like protein kinase and pathogenesis-related proteins, while, the changes of peroxidase biosynthesis, glycine-rich cell wall structural protein, cellulose synthase and xyloglucan endotransglucosylase/hydrolase could lead to the strengthening of physical barriers of rice, which may be an important resistance mechanism to RSV in rice.

  18. Rice Transcriptome Analysis to Identify Possible Herbicide Quinclorac Detoxification Genes

    Directory of Open Access Journals (Sweden)

    Wenying eXu

    2015-09-01

    Full Text Available Quinclorac is a highly selective auxin-type herbicide, and is widely used in the effective control of barnyard grass in paddy rice fields, improving the world’s rice yield. The herbicide mode of action of quinclorac has been proposed and hormone interactions affect quinclorac signaling. Because of widespread use, quinclorac may be transported outside rice fields with the drainage waters, leading to soil and water pollution and environmental health problems.In this study, we used 57K Affymetrix rice whole-genome array to identify quinclorac signaling response genes to study the molecular mechanisms of action and detoxification of quinclorac in rice plants. Overall, 637 probe sets were identified with differential expression levels under either 6 or 24 h of quinclorac treatment. Auxin-related genes such as GH3 and OsIAAs responded to quinclorac treatment. Gene Ontology analysis showed that genes of detoxification-related family genes were significantly enriched, including cytochrome P450, GST, UGT, and ABC and drug transporter genes. Moreover, real-time RT-PCR analysis showed that top candidate P450 families such as CYP81, CYP709C and CYP72A genes were universally induced by different herbicides. Some Arabidopsis genes for the same P450 family were up-regulated under quinclorac treatment.We conduct rice whole-genome GeneChip analysis and the first global identification of quinclorac response genes. This work may provide potential markers for detoxification of quinclorac and biomonitors of environmental chemical pollution.

  19. Genome-Wide Transcriptome Analysis of Cadmium Stress in Rice

    Directory of Open Access Journals (Sweden)

    Youko Oono

    2016-01-01

    Full Text Available Rice growth is severely affected by toxic concentrations of the nonessential heavy metal cadmium (Cd. To elucidate the molecular basis of the response to Cd stress, we performed mRNA sequencing of rice following our previous study on exposure to high concentrations of Cd (Oono et al., 2014. In this study, rice plants were hydroponically treated with low concentrations of Cd and approximately 211 million sequence reads were mapped onto the IRGSP-1.0 reference rice genome sequence. Many genes, including some identified under high Cd concentration exposure in our previous study, were found to be responsive to low Cd exposure, with an average of about 11,000 transcripts from each condition. However, genes expressed constitutively across the developmental course responded only slightly to low Cd concentrations, in contrast to their clear response to high Cd concentration, which causes fatal damage to rice seedlings according to phenotypic changes. The expression of metal ion transporter genes tended to correlate with Cd concentration, suggesting the potential of the RNA-Seq strategy to reveal novel Cd-responsive transporters by analyzing gene expression under different Cd concentrations. This study could help to develop novel strategies for improving tolerance to Cd exposure in rice and other cereal crops.

  20. Transcriptome Analysis of Salt Stress Responsiveness in the Seedlings of Dongxiang Wild Rice (Oryza rufipogon Griff.).

    Science.gov (United States)

    Zhou, Yi; Yang, Ping; Cui, Fenglei; Zhang, Fantao; Luo, Xiangdong; Xie, Jiankun

    2016-01-01

    Dongxiang wild rice (Oryza rufipogon Griff.) is the progenitor of cultivated rice (Oryza sativa L.), and is well known for its superior level of tolerance against cold, drought and diseases. To date, however, little is known about the salt-tolerant character of Dongxiang wild rice. To elucidate the molecular genetic mechanisms of salt-stress tolerance in Dongxiang wild rice, the Illumina HiSeq 2000 platform was used to analyze the transcriptome profiles of the leaves and roots at the seedling stage under salt stress compared with those under normal conditions. The analysis results for the sequencing data showed that 6,867 transcripts were differentially expressed in the leaves (2,216 up-regulated and 4,651 down-regulated) and 4,988 transcripts in the roots (3,105 up-regulated and 1,883 down-regulated). Among these differentially expressed genes, the detection of many transcription factor genes demonstrated that multiple regulatory pathways were involved in salt stress tolerance. In addition, the differentially expressed genes were compared with the previous RNA-Seq analysis of salt-stress responses in cultivated rice Nipponbare, indicating the possible specific molecular mechanisms of salt-stress responses for Dongxiang wild rice. A large number of the salt-inducible genes identified in this study were co-localized onto fine-mapped salt-tolerance-related quantitative trait loci, providing candidates for gene cloning and elucidation of molecular mechanisms responsible for salt-stress tolerance in rice.

  1. NOAA NEXt-Generation RADar (NEXRAD) Products

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This dataset consists of Level III weather radar products collected from Next-Generation Radar (NEXRAD) stations located in the contiguous United States, Alaska,...

  2. Galaxy LIMS for next-generation sequencing

    NARCIS (Netherlands)

    Scholtalbers, J.; Rossler, J.; Sorn, P.; Graaf, J. de; Boisguerin, V.; Castle, J.; Sahin, U.

    2013-01-01

    SUMMARY: We have developed a laboratory information management system (LIMS) for a next-generation sequencing (NGS) laboratory within the existing Galaxy platform. The system provides lab technicians standard and customizable sample information forms, barcoded submission forms, tracking of input

  3. A Next Generation BioPhotonics Workstation

    DEFF Research Database (Denmark)

    Glückstad, Jesper; Palima, Darwin; Tauro, Sandeep

    2011-01-01

    We are developing a Next Generation BioPhotonics Workstation to be applied in research on regulated microbial cell growth including their underlying physiological mechanisms, in vivo characterization of cell constituents and manufacturing of nanostructures and meta-materials.......We are developing a Next Generation BioPhotonics Workstation to be applied in research on regulated microbial cell growth including their underlying physiological mechanisms, in vivo characterization of cell constituents and manufacturing of nanostructures and meta-materials....

  4. Optical Subsystems for Next Generation Access Networks

    DEFF Research Database (Denmark)

    Lazaro, J.A; Polo, V.; Schrenk, B.

    2011-01-01

    Recent optical technologies are providing higher flexibility to next generation access networks: on the one hand, providing progressive FTTx and specifically FTTH deployment, progressively shortening the copper access network; on the other hand, also opening fixed-mobile convergence solutions...... in next generation PON architectures. It is provided an overview of the optical subsystems developed for the implementation of the proposed NG-Access Networks....

  5. Transcriptome Analysis of Early Responsive Genes in Rice during Magnaporthe oryzae Infection

    Directory of Open Access Journals (Sweden)

    Yiming Wang

    2014-12-01

    Full Text Available Rice blast disease caused by Magnaporthe oryzae is one of the most serious diseases of cultivated rice (Oryza sativa L. in most rice-growing regions of the world. In order to investigate early response genes in rice, we utilized the transcriptome analysis approach using a 300 K tilling microarray to rice leaves infected with compatible and incompatible M. oryzae strains. Prior to the microarray experiment, total RNA was validated by measuring the differential expression of rice defense-related marker genes (chitinase 2, barwin, PBZ1, and PR-10 by RT-PCR, and phytoalexins (sakuranetin and momilactone A with HPLC. Microarray analysis revealed that 231 genes were up-regulated (>2 fold change, p < 0.05 in the incompatible interaction compared to the compatible one. Highly expressed genes were functionally characterized into metabolic processes and oxidation-reduction categories. The oxidative stress response was induced in both early and later infection stages. Biotic stress overview from MapMan analysis revealed that the phytohormone ethylene as well as signaling molecules jasmonic acid and salicylic acid is important for defense gene regulation. WRKY and Myb transcription factors were also involved in signal transduction processes. Additionally, receptor-like kinases were more likely associated with the defense response, and their expression patterns were validated by RT-PCR. Our results suggest that candidate genes, including receptor-like protein kinases, may play a key role in disease resistance against M. oryzae attack.

  6. Progress on next generation linear colliders

    International Nuclear Information System (INIS)

    Ruth, R.D.

    1989-01-01

    In this paper, I focus on reviewing the issues and progress on a next generation linear collider with the general parameters of energy, luminosity, length, power, technology. The energy range is dictated by physics with a mass reach well beyond LEP, although somewhat short of SSC. The luminosity is that required to obtain 10 3 /minus/ 10 4 units of R 0 per year. The length is consistent with a site on Stanford land with collisions occurring on the SLAC site. The power was determined by economic considerations. Finally, the technology was limited by the desire to have a next generation linear collider before the next century. 25 refs., 3 figs., 6 tabs

  7. Next Generation Solar Collectors for CSP

    Energy Technology Data Exchange (ETDEWEB)

    Molnar, Attila [3M Company, St. Paul, MN (United States); Charles, Ruth [3M Company, St. Paul, MN (United States)

    2014-07-31

    The intent of “Next Generation Solar Collectors for CSP” program was to develop key technology elements for collectors in Phase 1 (Budget Period 1), design these elements in Phase 2 (Budget Period 2) and to deploy and test the final collector in Phase 3 (Budget Period 3). 3M and DOE mutually agreed to terminate the program at the end of Budget Period 1, primarily due to timeline issues. However, significant advancements were achieved in developing a next generation reflective material and panel that has the potential to significantly improve the efficiency of CSP systems.

  8. Transcriptomic Analysis of Gibberellin- and Paclobutrazol-Treated Rice Seedlings under Submergence

    Directory of Open Access Journals (Sweden)

    Jing Xiang

    2017-10-01

    Full Text Available Submergence stress is a limiting factor for rice growing in rainfed lowland areas of the world. It is known that the phytohormone gibberellin (GA has negative effects on submergence tolerance in rice, while its inhibitor paclobutrazol (PB does the opposite. However, the physiological and molecular basis underlying the GA- and PB-regulated submergence response remains largely unknown. In this study, we reveal that PB could significantly enhance rice seedling survival by retaining a higher level of chlorophyll content and alcohol dehydrogenase activity, and decelerating the consumption of non-structure carbohydrate when compared with the control and GA-treated samples. Further transcriptomic analysis identified 3936 differentially expressed genes (DEGs among the GA- and PB-treated samples and control, which are extensively involved in the submergence and other abiotic stress responses, phytohormone biosynthesis and signaling, photosynthesis, and nutrient metabolism. The results suggested that PB enhances rice survival under submergence through maintaining the photosynthesis capacity and reducing nutrient metabolism. Taken together, the current study provided new insight into the mechanism of phytohormone-regulated submergence response in rice.

  9. Data Analysis and Next Generation Assessments

    Science.gov (United States)

    Pon, Kathy

    2013-01-01

    For the last decade, much of the work of California school administrators has been shaped by the accountability of the No Child Left Behind Act. Now as they stand at the precipice of Common Core Standards and next generation assessments, it is important to reflect on the proficiency educators have attained in using data to improve instruction and…

  10. Next Generation Drivetrain Development and Test Program

    Energy Technology Data Exchange (ETDEWEB)

    Keller, Jonathan; Erdman, Bill; Blodgett, Doug; Halse, Chris; Grider, Dave

    2015-11-03

    This presentation was given at the Wind Energy IQ conference in Bremen, Germany, November 30 through December 2, 2105. It focused on the next-generation drivetrain architecture and drivetrain technology development and testing (including gearbox and inverter software and medium-voltage inverter modules.

  11. Educating the next generation of nature entrepreneurs

    Science.gov (United States)

    Judith C. Jobse; Loes Witteveen; Judith Santegoets; Daan van der Linde

    2015-01-01

    With this paper, it is illustrated that a focus on entrepreneurship training in the nature and wilderness sector is relevant for diverse organisations and situations. The first curricula on nature entrepreneurship are currently being developed. In this paper the authors describe a project that focusses on educating the next generation of nature entrepreneurs, reflect...

  12. Optimizing the next generation optical access networks

    DEFF Research Database (Denmark)

    Amaya Fernández, Ferney Orlando; Soto, Ana Cardenas; Tafur Monroy, Idelfonso

    2009-01-01

    Several issues in the design and optimization of the next generation optical access network (NG-OAN) are presented. The noise, the distortion and the fiber optic nonlinearities are considered to optimize the video distribution link in a passive optical network (PON). A discussion of the effect...

  13. Achieving universal access to next generation networks

    DEFF Research Database (Denmark)

    Falch, Morten; Henten, Anders

    The paper examines investment dimensions of next generation networks in a universal service perspective in a European context. The question is how new network infrastructures for getting access to communication, information and entertainment services in the present and future information society...

  14. Implementing the Next Generation Science Standards

    Science.gov (United States)

    Penuel, William R.; Harris, Christopher J.; DeBarger, Angela Haydel

    2015-01-01

    The Next Generation Science Standards embody a new vision for science education grounded in the idea that science is both a body of knowledge and a set of linked practices for developing knowledge. The authors describe strategies that they suggest school and district leaders consider when designing strategies to support NGSS implementation.

  15. IPv6: The Next Generation Internet Protocol

    Indian Academy of Sciences (India)

    Home; Journals; Resonance – Journal of Science Education; Volume 8; Issue 3. IPv6: The Next Generation Internet Protocol - IPv4 and its Shortcomings. Harsha Srinath. General Article Volume 8 Issue 3 March 2003 pp 33-41. Fulltext. Click here to view fulltext PDF. Permanent link:

  16. IPv6: The Next Generation Internet Protocol

    Indian Academy of Sciences (India)

    Home; Journals; Resonance – Journal of Science Education; Volume 8; Issue 4. IPv6: The Next Generation Internet Protocol - New Features in IPv6. Harsha Srinath. General Article Volume 8 Issue 4 April 2003 pp 8-16. Fulltext. Click here to view fulltext PDF. Permanent link:

  17. Cluster cosmology with next-generation surveys.

    Science.gov (United States)

    Ascaso, B.

    2017-03-01

    The advent of next-generation surveys will provide a large number of cluster detections that will serve the basis for constraining cos mological parameters using cluster counts. The main two observational ingredients needed are the cluster selection function and the calibration of the mass-observable relation. In this talk, we present the methodology designed to obtain robust predictions of both ingredients based on realistic cosmological simulations mimicking the following next-generation surveys: J-PAS, LSST and Euclid. We display recent results on the selection functions for these mentioned surveys together with others coming from other next-generation surveys such as eROSITA, ACTpol and SPTpol. We notice that the optical and IR surveys will reach the lowest masses between 0.3next-generation surveys and introduce very preliminary results.

  18. IPv6: The Next Generation Internet Protocol

    Indian Academy of Sciences (India)

    addressing, new generation internet. 2. ... required the creation of the next generation of Internet ... IPv6 standards have defined the following Extension headers ..... addresses are represented as x:x:x:x:x:x:x:x, where each x is the hexadecimal ...

  19. Transcriptome analysis of phosphorus stress responsiveness in the seedlings of Dongxiang wild rice (Oryza rufipogon Griff.).

    Science.gov (United States)

    Deng, Qian-Wen; Luo, Xiang-Dong; Chen, Ya-Ling; Zhou, Yi; Zhang, Fan-Tao; Hu, Biao-Lin; Xie, Jian-Kun

    2018-03-15

    Low phosphorus availability is a major factor restricting rice growth. Dongxiang wild rice (Oryza rufipogon Griff.) has many useful genes lacking in cultivated rice, including stress resistance to phosphorus deficiency, cold, salt and drought, which is considered to be a precious germplasm resource for rice breeding. However, the molecular mechanism of regulation of phosphorus deficiency tolerance is not clear. In this study, cDNA libraries were constructed from the leaf and root tissues of phosphorus stressed and untreated Dongxiang wild rice seedlings, and transcriptome sequencing was performed with the goal of elucidating the molecular mechanisms involved in phosphorus stress response. The results indicated that 1184 transcripts were differentially expressed in the leaves (323 up-regulated and 861 down-regulated) and 986 transcripts were differentially expressed in the roots (756 up-regulated and 230 down-regulated). 43 genes were up-regulated both in leaves and roots, 38 genes were up-regulated in roots but down-regulated in leaves, and only 2 genes were down-regulated in roots but up-regulated in leaves. Among these differentially expressed genes, the detection of many transcription factors and functional genes demonstrated that multiple regulatory pathways were involved in phosphorus deficiency tolerance. Meanwhile, the differentially expressed genes were also annotated with gene ontology terms and key pathways via functional classification and Kyoto Encyclopedia of Gene and Genomes pathway mapping, respectively. A set of the most important candidate genes was then identified by combining the differentially expressed genes found in the present study with previously identified phosphorus deficiency tolerance quantitative trait loci. The present work provides abundant genomic information for functional dissection of the phosphorus deficiency resistance of Dongxiang wild rice, which will be help to understand the biological regulatory mechanisms of phosphorus

  20. NASA's Next Generation Space Geodesy Program

    Science.gov (United States)

    Merkowitz, S. M.; Desai, S. D.; Gross, R. S.; Hillard, L. M.; Lemoine, F. G.; Long, J. L.; Ma, C.; McGarry, J. F.; Murphy, D.; Noll, C. E.; hide

    2012-01-01

    Requirements for the ITRF have increased dramatically since the 1980s. The most stringent requirement comes from critical sea level monitoring programs: a global accuracy of 1.0 mm, and 0.1mm/yr stability, a factor of 10 to 20 beyond current capability. Other requirements for the ITRF coming from ice mass change, ground motion, and mass transport studies are similar. Current and future satellite missions will have ever-increasing measurement capability and will lead to increasingly sophisticated models of these and other changes in the Earth system. Ground space geodesy networks with enhanced measurement capability will be essential to meeting the ITRF requirements and properly interpreting the satellite data. These networks must be globally distributed and built for longevity, to provide the robust data necessary to generate improved models for proper interpretation of the observed geophysical signals. NASA has embarked on a Space Geodesy Program with a long-range goal to build, deploy and operate a next generation NASA Space Geodetic Network (SGN). The plan is to build integrated, multi-technique next-generation space geodetic observing systems as the core contribution to a global network designed to produce the higher quality data required to maintain the Terrestrial Reference Frame and provide information essential for fully realizing the measurement potential of the current and coming generation of Earth Observing spacecraft. Phase 1 of this project has been funded to (1) Establish and demonstrate a next-generation prototype integrated Space Geodetic Station at Goddard's Geophysical and Astronomical Observatory (GGAO), including next-generation SLR and VLBI systems along with modern GNSS and DORIS; (2) Complete ongoing Network Design Studies that describe the appropriate number and distribution of next-generation Space Geodetic Stations for an improved global network; (3) Upgrade analysis capability to handle the next-generation data; (4) Implement a modern

  1. De novo Transcriptome Assembly of Common Wild Rice (Oryza rufipogon Griff.) and Discovery of Drought-Response Genes in Root Tissue Based on Transcriptomic Data.

    Science.gov (United States)

    Tian, Xin-Jie; Long, Yan; Wang, Jiao; Zhang, Jing-Wen; Wang, Yan-Yan; Li, Wei-Min; Peng, Yu-Fa; Yuan, Qian-Hua; Pei, Xin-Wu

    2015-01-01

    The perennial O. rufipogon (common wild rice), which is considered to be the ancestor of Asian cultivated rice species, contains many useful genetic resources, including drought resistance genes. However, few studies have identified the drought resistance and tissue-specific genes in common wild rice. In this study, transcriptome sequencing libraries were constructed, including drought-treated roots (DR) and control leaves (CL) and roots (CR). Using Illumina sequencing technology, we generated 16.75 million bases of high-quality sequence data for common wild rice and conducted de novo assembly and annotation of genes without prior genome information. These reads were assembled into 119,332 unigenes with an average length of 715 bp. A total of 88,813 distinct sequences (74.42% of unigenes) significantly matched known genes in the NCBI NT database. Differentially expressed gene (DEG) analysis showed that 3617 genes were up-regulated and 4171 genes were down-regulated in the CR library compared with the CL library. Among the DEGs, 535 genes were expressed in roots but not in shoots. A similar comparison between the DR and CR libraries showed that 1393 genes were up-regulated and 315 genes were down-regulated in the DR library compared with the CR library. Finally, 37 genes that were specifically expressed in roots were screened after comparing the DEGs identified in the above-described analyses. This study provides a transcriptome sequence resource for common wild rice plants and establishes a digital gene expression profile of wild rice plants under drought conditions using the assembled transcriptome data as a reference. Several tissue-specific and drought-stress-related candidate genes were identified, representing a fully characterized transcriptome and providing a valuable resource for genetic and genomic studies in plants.

  2. Comparative transcriptome analysis of rice seedlings induced by different doses of heavy ion radiation

    Science.gov (United States)

    Zhao, Qian; Sun, Yeqing; Wang, Wei

    2016-07-01

    Highly ionizing radiation (HZE) in space is considered as a main factor causing biological effects on plant seeds. To investigate the different effects on genome-wide gene expression of low-dose and high-dose ion radiation, we carried out ground-base carbon particle HZE experiments with different cumulative doses (0Gy, 0.2Gy, 2Gy) to rice seeds and then performed comparative transcriptome analysis of the rice seedlings. We identified a total of 2551 and 1464 differentially expressed genes (DEGs) in low-dose and high-dose radiation groups, respectively. Gene ontology analyses indicated that low-dose and high-dose ion radiation both led to multiple physiological and biochemical activities changes in rice. By Gene Ontology analyses, the results showed that only one process-oxidation reduction process was enriched in the biological process category after high-dose ion radiation, while more processes such as response to biotic stimulus, heme binding, tetrapyrrole binding, oxidoreductase activity, catalytic activity and oxidoreductase activity were significantly enriched after low-dose ion radiation. The results indicated that the rice plants only focused on the process of oxidation reduction to response to high-dose ion radiation, whereas it was a coordination of multiple biological processes to response to low-dose ion radiation. To elucidate the transcriptional regulation of radiation stress-responsive genes, we identified several DEGs-encoding TFs. AP2/EREBP, bHLH, C2H2, MYB and WRKY TF families were altered significantly in response to ion radiation. Mapman analysis speculated that the biological effects on rice seedlings caused by the radiation stress might share similar mechanisms with the biotic stress. Our findings highlight important alterations in the expression of radiation response genes, metabolic pathways, and TF-encoding genes in rice seedlings exposed to low-dose and high-dose ion radiation.

  3. Transcriptomic analysis of rice aleurone cells identified a novel abscisic acid response element.

    Science.gov (United States)

    Watanabe, Kenneth A; Homayouni, Arielle; Gu, Lingkun; Huang, Kuan-Ying; Ho, Tuan-Hua David; Shen, Qingxi J

    2017-09-01

    Seeds serve as a great model to study plant responses to drought stress, which is largely mediated by abscisic acid (ABA). The ABA responsive element (ABRE) is a key cis-regulatory element in ABA signalling. However, its consensus sequence (ACGTG(G/T)C) is present in the promoters of only about 40% of ABA-induced genes in rice aleurone cells, suggesting other ABREs may exist. To identify novel ABREs, RNA sequencing was performed on aleurone cells of rice seeds treated with 20 μM ABA. Gibbs sampling was used to identify enriched elements, and particle bombardment-mediated transient expression studies were performed to verify the function. Gene ontology analysis was performed to predict the roles of genes containing the novel ABREs. This study revealed 2443 ABA-inducible genes and a novel ABRE, designated as ABREN, which was experimentally verified to mediate ABA signalling in rice aleurone cells. Many of the ABREN-containing genes are predicted to be involved in stress responses and transcription. Analysis of other species suggests that the ABREN may be monocot specific. This study also revealed interesting expression patterns of genes involved in ABA metabolism and signalling. Collectively, this study advanced our understanding of diverse cis-regulatory sequences and the transcriptomes underlying ABA responses in rice aleurone cells. © 2017 John Wiley & Sons Ltd.

  4. Root Transcriptomic Analysis Revealing the Importance of Energy Metabolism to the Development of Deep Roots in Rice (Oryza sativa L.)

    OpenAIRE

    Lou, Qiaojun; Chen, Liang; Mei, Hanwei; Xu, Kai; Wei, Haibin; Feng, Fangjun; Li, Tiemei; Pang, Xiaomeng; Shi, Caiping; Luo, Lijun; Zhong, Yang

    2017-01-01

    Drought is the most serious abiotic stress limiting rice production, and deep root is the key contributor to drought avoidance. However, the genetic mechanism regulating the development of deep roots is largely unknown. In this study, the transcriptomes of 74 root samples from 37 rice varieties, representing the extreme genotypes of shallow or deep rooting, were surveyed by RNA-seq. The 13,242 differentially expressed genes (DEGs) between deep rooting and shallow rooting varieties (H vs. L) w...

  5. Understanding Cancer Genome and Its Evolution by Next Generation Sequencing

    DEFF Research Database (Denmark)

    Hou, Yong

    Cancer will cause 13 million deaths by the year of 2030, ranking the second leading cause of death worldwide. Previous studies indicate that most of the cancers originate from cells that acquired somatic mutations and evolved as Darwin Theory. Ten biological insights of cancer have been summarized...... recently. Cutting-age technologies like next generation sequencing (NGS) enable exploring cancer genome and evolution much more efficiently. However, integrated cancer genome sequencing studies showed great inter-/intra-tumoral heterogeneity (ITH) and complex evolution patterns beyond the cancer biological...... knowledge we previously know. There is very limited knowledge of East Asia lung cancer genome except enrichment of EGFR mutations and lack of KRAS mutations. We carried out integrated genomic, transcriptomic and methylomic analysis of 335 primary Chinese lung adenocarcinomas (LUAD) and 35 corresponding...

  6. Next Generation of Photovoltaics New Concepts

    CERN Document Server

    Vega, Antonio; López, Antonio

    2012-01-01

    This book presents new concepts for a next generation of PV. Among these concepts are: Multijunction solar cells, multiple excitation solar cells (or how to take benefit of high energy photons for the creation of more than one electron hole-pair), intermediate band solar cells (or how to take advantage of below band-gap energy photons) and related technologies (for quantum dots, nitrides, thin films), advanced light management approaches (plasmonics). Written by world-class experts in next generation photovoltaics this book is an essential reference guide accessible to both beginners and experts working with solar cell technology. The book deeply analyzes the current state-of-the-art of the new photovoltaic approaches and outlines the implementation paths of these advanced devices. Topics addressed range from the fundamentals to the description of state-of-the-art of the new types of solar cells.

  7. Next generation biofuel engineering in prokaryotes

    Science.gov (United States)

    Gronenberg, Luisa S.; Marcheschi, Ryan J.; Liao, James C.

    2014-01-01

    Next-generation biofuels must be compatible with current transportation infrastructure and be derived from environmentally sustainable resources that do not compete with food crops. Many bacterial species have unique properties advantageous to the production of such next-generation fuels. However, no single species possesses all characteristics necessary to make high quantities of fuels from plant waste or CO2. Species containing a subset of the desired characteristics are used as starting points for engineering organisms with all desired attributes. Metabolic engineering of model organisms has yielded high titer production of advanced fuels, including alcohols, isoprenoids and fatty acid derivatives. Technical developments now allow engineering of native fuel producers, as well as lignocellulolytic and autotrophic bacteria, for the production of biofuels. Continued research on multiple fronts is required to engineer organisms for truly sustainable and economical biofuel production. PMID:23623045

  8. Next generation of photovoltaics. New concepts

    Energy Technology Data Exchange (ETDEWEB)

    Cristobal Lopez, Ana Belen; Marti Vega, Antonio; Luque Lopez, Antonio (eds.) [Univ. Politecnica de Madrid (Spain). Inst. de Energia Solar E.T.S.I. Telecomunicacion

    2012-07-01

    This book presents new concepts for a next generation of PV. Among these concepts are: Multijunction solar cells, multiple excitation solar cells (or how to take benefit of high energy photons for the creation of more than one electron hole-pair), intermediate band solar cells (or how to take advantage of below band-gap energy photons) and related technologies (for quantum dots, nitrides, thin films), advanced light management approaches (plasmonics). Written by world-class experts in next generation photovoltaics this book is an essential reference guide accessible to both beginners and experts working with solar cell technology. The book deeply analyzes the current state-of-the-art of the new photovoltaic approaches and outlines the implementation paths of these advanced devices. Topics addressed range from the fundamentals to the description of state-of-the-art of the new types of solar cells. (orig.)

  9. Special Issue: Next Generation DNA Sequencing

    Directory of Open Access Journals (Sweden)

    Paul Richardson

    2010-10-01

    Full Text Available Next Generation Sequencing (NGS refers to technologies that do not rely on traditional dideoxy-nucleotide (Sanger sequencing where labeled DNA fragments are physically resolved by electrophoresis. These new technologies rely on different strategies, but essentially all of them make use of real-time data collection of a base level incorporation event across a massive number of reactions (on the order of millions versus 96 for capillary electrophoresis for instance. The major commercial NGS platforms available to researchers are the 454 Genome Sequencer (Roche, Illumina (formerly Solexa Genome analyzer, the SOLiD system (Applied Biosystems/Life Technologies and the Heliscope (Helicos Corporation. The techniques and different strategies utilized by these platforms are reviewed in a number of the papers in this special issue. These technologies are enabling new applications that take advantage of the massive data produced by this next generation of sequencing instruments. [...

  10. NASA's Next Generation Space Geodesy Network

    Science.gov (United States)

    Desai, S. D.; Gross, R. S.; Hilliard, L.; Lemoine, F. G.; Long, J. L.; Ma, C.; McGarry, J. F.; Merkowitz, S. M.; Murphy, D.; Noll, C. E.; hide

    2012-01-01

    NASA's Space Geodesy Project (SGP) is developing a prototype core site for a next generation Space Geodetic Network (SGN). Each of the sites in this planned network co-locate current state-of-the-art stations from all four space geodetic observing systems, GNSS, SLR, VLBI, and DORIS, with the goal of achieving modern requirements for the International Terrestrial Reference Frame (ITRF). In particular, the driving ITRF requirements for this network are 1.0 mm in accuracy and 0.1 mm/yr in stability, a factor of 10-20 beyond current capabilities. Development of the prototype core site, located at NASA's Geophysical and Astronomical Observatory at the Goddard Space Flight Center, started in 2011 and will be completed by the end of 2013. In January 2012, two operational GNSS stations, GODS and GOON, were established at the prototype site within 100 m of each other. Both stations are being proposed for inclusion into the IGS network. In addition, work is underway for the inclusion of next generation SLR and VLBI stations along with a modern DORIS station. An automated survey system is being developed to measure inter-technique vectorties, and network design studies are being performed to define the appropriate number and distribution of these next generation space geodetic core sites that are required to achieve the driving ITRF requirements. We present the status of this prototype next generation space geodetic core site, results from the analysis of data from the established geodetic stations, and results from the ongoing network design studies.

  11. Fiber to the home: next generation network

    Science.gov (United States)

    Yang, Chengxin; Guo, Baoping

    2006-07-01

    Next generation networks capable of carrying converged telephone, television (TV), very high-speed internet, and very high-speed bi-directional data services (like video-on-demand (VOD), Game etc.) strategy for Fiber To The Home (FTTH) is presented. The potential market is analyzed. The barriers and some proper strategy are also discussed. Several technical problems like various powering methods, optical fiber cables, and different network architecture are discussed too.

  12. Neutronics activities for next generation devices

    International Nuclear Information System (INIS)

    Gohar, Y.

    1985-01-01

    Neutronic activities for the next generation devices are the subject of this paper. The main activities include TFCX and FPD blanket/shield studies, neutronic aspects of ETR/INTOR critical issues, and neutronics computational modules for the tokamak system code and tandem mirror reactor system code. Trade-off analyses, optimization studies, design problem investigations and computational models development for reactor parametric studies carried out for these activities are summarized

  13. Transcriptomic analysis of the rice white tip nematode, Aphelenchoides besseyi (Nematoda: Aphelenchoididae.

    Directory of Open Access Journals (Sweden)

    Feng Wang

    Full Text Available BACKGROUND: The rice white tip nematode Aphelenchoides besseyi, a devastating nematode whose genome has not been sequenced, is distributed widely throughout almost all the rice-growing regions of the world. The aims of the present study were to define the transcriptome of A. besseyi and to identify parasite-related, mortality-related or host resistance-overcoming genes in this nematode. METHODOLOGY AND PRINCIPAL FINDINGS: Using Solexa/Illumina sequencing, we profiled the transcriptome of mixed-stage populations of A. besseyi. A total of 51,270 transcripts without gaps were produced based on high-quality clean reads. Of all the A. besseyi transcripts, 9,132 KEGG Orthology assignments were annotated. Carbohydrate-active enzymes of glycoside hydrolases (GHs, glycosyltransferases (GTs, carbohydrate esterases (CEs and carbohydrate-binding modules (CBMs were identified. The presence of the A. besseyi GH45 cellulase gene was verified by in situ hybridization. Given that 13 unique A. besseyi potential effector genes were identified from 41 candidate effector homologs, further studies of these homologs are merited. Finally, comparative analyses were conducted between A. besseyi contigs and Caenorhabditis elegans genes to look for orthologs of RNAi phenotypes, neuropeptides and peptidases. CONCLUSIONS AND SIGNIFICANCE: The present results provide comprehensive insight into the genetic makeup of A. besseyi. Many of this species' genes are parasite related, nematode mortality-related or necessary to overcome host resistance. The generated transcriptome dataset of A. besseyi reported here lays the foundation for further studies of the molecular mechanisms related to parasitism and facilitates the development of new control strategies for this species.

  14. Transporter genes identified in landraces associated with high zinc in polished rice through panicle transcriptome for biofortification.

    Directory of Open Access Journals (Sweden)

    C N Neeraja

    Full Text Available Polished rice is poor source of micronutrients, however wide genotypic variability exists for zinc uptake and remobilization and zinc content in brown and polished grains in rice. Two landraces (Chittimutyalu and Kala Jeera Joha and one popular improved variety (BPT 5204 were grown under zinc sufficient soil and their analyses showed high zinc in straw of improved variety, but high zinc in polished rice in landraces suggesting better translocation ability of zinc into the grain in landraces. Transcriptome analyses of the panicle tissue showed 41182 novel transcripts across three samples. Out of 1011 differentially expressed exclusive transcripts by two landraces, 311 were up regulated and 534 were down regulated. Phosphate transporter-exporter (PHO, proton-coupled peptide transporters (POT and vacuolar iron transporter (VIT showed enhanced and significant differential expression in landraces. Out of 24 genes subjected to quantitative real time analyses for confirmation, eight genes showed significant differential expression in landraces. Through mapping, six rice microsatellite markers spanning the genomic regions of six differentially expressed genes were validated for their association with zinc in brown and polished rice using recombinant inbred lines (RIL of BPT 5204/Chittimutyalu. Thus, this study reports repertoire of genes associated with high zinc in polished rice and a proof concept for deployment of transcriptome information for validation in mapping population and its use in marker assisted selection for biofortification of rice with zinc.

  15. Transporter genes identified in landraces associated with high zinc in polished rice through panicle transcriptome for biofortification

    Science.gov (United States)

    Kulkarni, Kalyani S.; Madhu Babu, P.; Sanjeeva Rao, D.; Surekha, K.; Ravindra Babu, V

    2018-01-01

    Polished rice is poor source of micronutrients, however wide genotypic variability exists for zinc uptake and remobilization and zinc content in brown and polished grains in rice. Two landraces (Chittimutyalu and Kala Jeera Joha) and one popular improved variety (BPT 5204) were grown under zinc sufficient soil and their analyses showed high zinc in straw of improved variety, but high zinc in polished rice in landraces suggesting better translocation ability of zinc into the grain in landraces. Transcriptome analyses of the panicle tissue showed 41182 novel transcripts across three samples. Out of 1011 differentially expressed exclusive transcripts by two landraces, 311 were up regulated and 534 were down regulated. Phosphate transporter-exporter (PHO), proton-coupled peptide transporters (POT) and vacuolar iron transporter (VIT) showed enhanced and significant differential expression in landraces. Out of 24 genes subjected to quantitative real time analyses for confirmation, eight genes showed significant differential expression in landraces. Through mapping, six rice microsatellite markers spanning the genomic regions of six differentially expressed genes were validated for their association with zinc in brown and polished rice using recombinant inbred lines (RIL) of BPT 5204/Chittimutyalu. Thus, this study reports repertoire of genes associated with high zinc in polished rice and a proof concept for deployment of transcriptome information for validation in mapping population and its use in marker assisted selection for biofortification of rice with zinc. PMID:29394277

  16. Transporter genes identified in landraces associated with high zinc in polished rice through panicle transcriptome for biofortification.

    Science.gov (United States)

    Neeraja, C N; Kulkarni, Kalyani S; Madhu Babu, P; Sanjeeva Rao, D; Surekha, K; Ravindra Babu, V

    2018-01-01

    Polished rice is poor source of micronutrients, however wide genotypic variability exists for zinc uptake and remobilization and zinc content in brown and polished grains in rice. Two landraces (Chittimutyalu and Kala Jeera Joha) and one popular improved variety (BPT 5204) were grown under zinc sufficient soil and their analyses showed high zinc in straw of improved variety, but high zinc in polished rice in landraces suggesting better translocation ability of zinc into the grain in landraces. Transcriptome analyses of the panicle tissue showed 41182 novel transcripts across three samples. Out of 1011 differentially expressed exclusive transcripts by two landraces, 311 were up regulated and 534 were down regulated. Phosphate transporter-exporter (PHO), proton-coupled peptide transporters (POT) and vacuolar iron transporter (VIT) showed enhanced and significant differential expression in landraces. Out of 24 genes subjected to quantitative real time analyses for confirmation, eight genes showed significant differential expression in landraces. Through mapping, six rice microsatellite markers spanning the genomic regions of six differentially expressed genes were validated for their association with zinc in brown and polished rice using recombinant inbred lines (RIL) of BPT 5204/Chittimutyalu. Thus, this study reports repertoire of genes associated with high zinc in polished rice and a proof concept for deployment of transcriptome information for validation in mapping population and its use in marker assisted selection for biofortification of rice with zinc.

  17. Next Generation NASA Initiative for Space Geodesy

    Science.gov (United States)

    Merkowitz, S. M.; Desai, S.; Gross, R. S.; Hilliard, L.; Lemoine, F. G.; Long, J. L.; Ma, C.; McGarry J. F.; Murphy, D.; Noll, C. E.; hide

    2012-01-01

    Space geodesy measurement requirements have become more and more stringent as our understanding of the physical processes and our modeling techniques have improved. In addition, current and future spacecraft will have ever-increasing measurement capability and will lead to increasingly sophisticated models of changes in the Earth system. Ground-based space geodesy networks with enhanced measurement capability will be essential to meeting these oncoming requirements and properly interpreting the sate1!ite data. These networks must be globally distributed and built for longevity, to provide the robust data necessary to generate improved models for proper interpretation ofthe observed geophysical signals. These requirements have been articulated by the Global Geodetic Observing System (GGOS). The NASA Space Geodesy Project (SGP) is developing a prototype core site as the basis for a next generation Space Geodetic Network (SGN) that would be NASA's contribution to a global network designed to produce the higher quality data required to maintain the Terrestrial Reference Frame and provide information essential for fully realizing the measurement potential of the current and coming generation of Earth Observing spacecraft. Each of the sites in the SGN would include co-located, state of-the-art systems from all four space geodetic observing techniques (GNSS, SLR, VLBI, and DORIS). The prototype core site is being developed at NASA's Geophysical and Astronomical Observatory at Goddard Space Flight Center. The project commenced in 2011 and is scheduled for completion in late 2013. In January 2012, two multiconstellation GNSS receivers, GODS and GODN, were established at the prototype site as part of the local geodetic network. Development and testing are also underway on the next generation SLR and VLBI systems along with a modern DORIS station. An automated survey system is being developed to measure inter-technique vector ties, and network design studies are being

  18. Cloud Sourcing – Next Generation Outsourcing?

    OpenAIRE

    Muhic, Mirella; Johansson, Björn

    2014-01-01

    Although Cloud Sourcing has been around for some time it could be questioned what actually is known about it. This paper presents a literature review on the specific question if Cloud Sourcing could be seen as the next generation of outsourcing. The reason for doing this is that from an initial sourcing study we found that the sourcing decisions seems to go in the direction of outsourcing as a service which could be described as Cloud Sourcing. Whereas some are convinced that Cloud Sourcing r...

  19. Thermonuclear ignition in the next generation tokamaks

    International Nuclear Information System (INIS)

    Johner, J.

    1989-04-01

    The extrapolation of experimental rules describing energy confinement and magnetohydrodynamic - stability limits, in known tokamaks, allow to show that stable thermonuclear ignition equilibria should exist in this configuration, if the product aB t x of the dimensions by a magnetic-field power is large enough. Quantitative application of this result to several next-generation tokamak projects show that those kinds of equilibria could exist in such devices, which would also have enough additional heating power to promote an effective accessible ignition

  20. Next generation of relativistic heavy ion accelerators

    International Nuclear Information System (INIS)

    Grunder, H.; Leemann, C.; Selph, F.

    1978-06-01

    Results are presented of exploratory and preliminary studies of a next generation of heavy ion accelerators. The conclusion is reached that useful luminosities are feasible in a colliding beam facility for relativistic heavy ions. Such an accelerator complex may be laid out in such a way as to provide extractebeams for fixed target operation, therefore allowing experimentation in an energy region overlapping with that presently available. These dual goals seem achievable without undue complications, or penalties with respect to cost and/or performance

  1. Next generation science standards available for comment

    Science.gov (United States)

    Asher, Pranoti

    2012-05-01

    The first public draft of the Next Generation Science Standards (NGSS) is now available for public comment. Feedback on the standards is sought from people who have a stake in science education, including individuals in the K-12, higher education, business, and research communities. Development of NGSS is a state-led effort to define the content and practices students need to learn from kindergarten through high school. NGSS will be based on the U.S. National Research Council's reportFramework for K-12 Science Education.

  2. Beamstrahlung spectra in next generation linear colliders

    Energy Technology Data Exchange (ETDEWEB)

    Barklow, T.; Chen, P. (Stanford Linear Accelerator Center, Menlo Park, CA (United States)); Kozanecki, W. (DAPNIA-SPP, CEN-Saclay (France))

    1992-04-01

    For the next generation of linear colliders, the energy loss due to beamstrahlung during the collision of the e{sup +}e{sup {minus}} beams is expected to substantially influence the effective center-of-mass energy distribution of the colliding particles. In this paper, we first derive analytical formulae for the electron and photon energy spectra under multiple beamstrahlung processes, and for the e{sup +}e{sup {minus}} and {gamma}{gamma} differential luminosities. We then apply our formulation to various classes of 500 GeV e{sup +}e{sup {minus}} linear collider designs currently under study.

  3. Synchronization System for Next Generation Light Sources

    Energy Technology Data Exchange (ETDEWEB)

    Zavriyev, Anton [MagiQ Technologies, Inc., Somerville, MA (United States)

    2014-03-27

    An alternative synchronization technique – one that would allow explicit control of the pulse train including its repetition rate and delay is clearly desired. We propose such a scheme. Our method is based on optical interferometry and permits synchronization of the pulse trains generated by two independent mode-locked lasers. As the next generation x-ray sources will be driven by a clock signal derived from a mode-locked optical source, our technique will provide a way to synchronize x-ray probe with the optical pump pulses.

  4. Next generation sequencing of pancreatic ductal adenocarcinoma: right or wrong?

    Science.gov (United States)

    Connor, Ashton A; Gallinger, Steven

    2017-07-01

    Pancreatic ductal adenocarcinoma (PDAC) has the highest mortality rate of all epithelial malignancies and a paradoxically rising incidence rate. Clinical translation of next generation sequencing (NGS) of tumour and germline samples may ameliorate outcomes by identifying prognostic and predictive genomic and transcriptomic features in appreciable fractions of patients, facilitating enrolment in biomarker-matched trials. Areas covered: The literature on precision oncology is reviewed. It is found that outcomes may be improved across various malignancies, and it is suggested that current issues of adequate tissue acquisition, turnaround times, analytic expertise and clinical trial accessibility may lessen as experience accrues. Also reviewed are PDAC genomic and transcriptomic NGS studies, emphasizing discoveries of promising biomarkers, though these require validation, and the fraction of patients that will benefit from these outside of the research setting is currently unknown. Expert commentary: Clinical use of NGS with PDAC should be used in investigational contexts in centers with multidisciplinary expertise in cancer sequencing and pancreatic cancer management. Biomarker directed studies will improve our understanding of actionable genomic variation in PDAC, and improve outcomes for this challenging disease.

  5. Transcriptome

    Science.gov (United States)

    ... Also: Talking Glossary of Genetic Terms Definitions for genetic terms used on this page En Español: Transcriptoma Transcriptome What is a transcriptome? What can a transcriptome tell us? How can transcriptome data be used to explore gene function? What is ...

  6. Next Generation Safeguards Initiative: Human Capital Development

    International Nuclear Information System (INIS)

    Scholz, M.; Irola, G.; Glynn, K.

    2015-01-01

    Since 2008, the Human Capital Development (HCD) subprogramme of the U.S. National Nuclear Security Administration's (NNSA) Next Generation Safeguards Initiative (NGSI) has supported the recruitment, education, training, and retention of the next generation of international safeguards professionals to meet the needs of both the International Atomic Energy Agency (IAEA) and the United States. Specifically, HCD's efforts respond to data indicating that 82% of safeguards experts at U.S. Laboratories will have left the workforce within 15 years. This paper provides an update on the status of the subprogramme since its last presentation at the IAEA Safeguards Symposium in 2010. It highlights strengthened, integrated efforts in the areas of graduate and post-doctoral fellowships, young and midcareer professional support, short safeguards courses, and university engagement. It also discusses lessons learned from the U.S. experience in safeguards education and training as well as the importance of long-range strategies to develop a cohesive, effective, and efficient human capital development approach. (author)

  7. Development of technology for next generation reactor - Development of next generation reactor in Korea -

    Energy Technology Data Exchange (ETDEWEB)

    Park, Jong Kyun; Chang, Moon Heuy; Hwang, Yung Dong [Korea Atomic Energy Research Institute, Taejon (Korea, Republic of); and others

    1993-09-01

    The project, development of next generation reactor, aims overall related technology development and obtainment of related license in 2001. The development direction is to determine the reactor type and to build up the design concept in 1994. For development trend analysis of foreign next generation reactor, level-1 PSA, fuel cycle analysis and computer code development are performed on System 80+ and AP 600. Especially for design characteristics analysis and volume upgrade of AP 600, nuclear fuel and reactor core design analysis, coolant circuit design analysis, mechanical structure design analysis and safety analysis etc. are performed. (Author).

  8. Tablet—next generation sequence assembly visualization

    Science.gov (United States)

    Milne, Iain; Bayer, Micha; Cardle, Linda; Shaw, Paul; Stephen, Gordon; Wright, Frank; Marshall, David

    2010-01-01

    Summary: Tablet is a lightweight, high-performance graphical viewer for next-generation sequence assemblies and alignments. Supporting a range of input assembly formats, Tablet provides high-quality visualizations showing data in packed or stacked views, allowing instant access and navigation to any region of interest, and whole contig overviews and data summaries. Tablet is both multi-core aware and memory efficient, allowing it to handle assemblies containing millions of reads, even on a 32-bit desktop machine. Availability: Tablet is freely available for Microsoft Windows, Apple Mac OS X, Linux and Solaris. Fully bundled installers can be downloaded from http://bioinf.scri.ac.uk/tablet in 32- and 64-bit versions. Contact: tablet@scri.ac.uk PMID:19965881

  9. Conceptual design of next generation MTR

    Energy Technology Data Exchange (ETDEWEB)

    Nagata, Hiroshi; Yamaura, Takayuki; Naka, Michihiro; Kawamata, Kazuo; Izumo, Hironobu; Hori, Naohiko; Nagao, Yoshiharu; Kusunoki, Tsuyoshi; Kaminaga, Masanori; Komori, Yoshihiro; Suzuki, Masahide; Kawamura, Hiroshi [Japan Atomic Energy Agency, Oarai Research and Development Center, Oarai, Ibaraki (Japan); Mine, M [Hitachi-GE Nuclear Energy, Ltd., Hitachi, Ibaraki (Japan); Yamazaki, S [Kawasaki Heavy Industries, Ltd., Kobe, Hyogo (Japan); Ishikawa, S [NGK Insulators, Ltd., Nagoya, Aichi (Japan); Miura, K [Sukegawa Electric Co., Ltd., Takahagi, Ibaraki (Japan); Nakashima, S [Fuji Electric Co., Ltd., Tokyo (Japan); Yamaguchi, K [Chiyoda Technol Corp., Tokyo (Japan)

    2012-03-15

    Conceptual design of the high-performance and low-cost next generation materials testing reactor (MTR) which will be expected to construct in the nuclear power plant introduction countries, started from 2010 in JAEA and nuclear-related companies in Japan. The aims of this conceptual design are to achieve highly safe reactor, economical design, high availability factor and advanced irradiation utilization. One of the basic reactor concept was determined as swimming pool type, thermal power of 10MW and water cooled and moderated reactor with plate type fuel element same as the JMTR. It is expected that the research reactors are used for human resource development, progress of the science and technology, expansion of industry use, lifetime extension of LWRs and so on. (author)

  10. Bioinformatics for Next Generation Sequencing Data

    Directory of Open Access Journals (Sweden)

    Alberto Magi

    2010-09-01

    Full Text Available The emergence of next-generation sequencing (NGS platforms imposes increasing demands on statistical methods and bioinformatic tools for the analysis and the management of the huge amounts of data generated by these technologies. Even at the early stages of their commercial availability, a large number of softwares already exist for analyzing NGS data. These tools can be fit into many general categories including alignment of sequence reads to a reference, base-calling and/or polymorphism detection, de novo assembly from paired or unpaired reads, structural variant detection and genome browsing. This manuscript aims to guide readers in the choice of the available computational tools that can be used to face the several steps of the data analysis workflow.

  11. Traffic Management for Next Generation Transport Networks

    DEFF Research Database (Denmark)

    Yu, Hao

    required by the next generation transport network to provide Quality-of-Service (QoS) guaranteed video services. Augmenting network capacity and upgrading network nodes indicate long deployment period, replacement of equipment and thus significant cost to the network service providers. This challenge may...... slacken the steps of some network operators towards providing IPTV services. In this dissertation, the topology-based hierarchical scheduling scheme is proposed to tackle the problem addressed. The scheme simplifies the deployment process by placing an intelligent switch with centralized traffic...... management functions at the edge of the network, scheduling traffic on behalf of the other nodes. The topology-based hierarchical scheduling scheme is able to provide outstanding flow isolation due to its centralized scheduling ability, which is essential for providing IPTV services. In order to reduce...

  12. Middleware for the next generation Grid infrastructure

    CERN Document Server

    Laure, E; Prelz, F; Beco, S; Fisher, S; Livny, M; Guy, L; Barroso, M; Buncic, P; Kunszt, Peter Z; Di Meglio, A; Aimar, A; Edlund, A; Groep, D; Pacini, F; Sgaravatto, M; Mulmo, O

    2005-01-01

    The aim of the EGEE (Enabling Grids for E-Science in Europe) project is to create a reliable and dependable European Grid infrastructure for e-Science. The objective of the EGEE Middleware Re-engineering and Integration Research Activity is to provide robust middleware components, deployable on several platforms and operating systems, corresponding to the core Grid services for resource access, data management, information collection, authentication & authorization, resource matchmaking and brokering, and monitoring and accounting. For achieving this objective, we developed an architecture and design of the next generation Grid middleware leveraging experiences and existing components essentially from AliEn, EDG, and VDT. The architecture follows the service breakdown developed by the LCG ARDA group. Our strategy is to do as little original development as possible but rather re-engineer and harden existing Grid services. The evolution of these middleware components towards a Service Oriented Architecture ...

  13. Integrated control of next generation power system

    Energy Technology Data Exchange (ETDEWEB)

    None, None

    2010-02-28

    The multi-agent system (MAS) approach has been applied with promising results for enhancing an electric power distribution circuit, such as the Circuit of the Future as developed by Southern California Edison. These next generation power system results include better ability to reconfigure the circuit as well as the increased capability to improve the protection and enhance the reliability of the circuit. There were four main tasks in this project. The specific results for each of these four tasks and their related topics are presented in main sections of this report. Also, there were seven deliverables for this project. The main conclusions for these deliverables are summarized in the identified subtask section of this report. The specific details for each of these deliverables are included in the “Project Deliverables” section at the end of this Final Report.

  14. Next generation of energy production systems

    International Nuclear Information System (INIS)

    Rouault, J.; Garnier, J.C.; Carre, F.

    2003-01-01

    This document gathers the slides that have been presented at the Gedepeon conference. Gedepeon is a research group involving scientists from Cea (French atomic energy commission), CNRS (national center of scientific research), EDF (electricity of France) and Framatome that is devoted to the study of new energy sources and particularly to the study of the future generations of nuclear systems. The contributions have been classed into 9 topics: 1) gas cooled reactors, 2) molten salt reactors (MSBR), 3) the recycling of plutonium and americium, 4) reprocessing of molten salt reactor fuels, 5) behavior of graphite under radiation, 6) metallic materials for molten salt reactors, 7) refractory fuels of gas cooled reactors, 8) the nuclear cycle for the next generations of nuclear systems, and 9) organization of research programs on the new energy sources

  15. Statistical analysis of next generation sequencing data

    CERN Document Server

    Nettleton, Dan

    2014-01-01

    Next Generation Sequencing (NGS) is the latest high throughput technology to revolutionize genomic research. NGS generates massive genomic datasets that play a key role in the big data phenomenon that surrounds us today. To extract signals from high-dimensional NGS data and make valid statistical inferences and predictions, novel data analytic and statistical techniques are needed. This book contains 20 chapters written by prominent statisticians working with NGS data. The topics range from basic preprocessing and analysis with NGS data to more complex genomic applications such as copy number variation and isoform expression detection. Research statisticians who want to learn about this growing and exciting area will find this book useful. In addition, many chapters from this book could be included in graduate-level classes in statistical bioinformatics for training future biostatisticians who will be expected to deal with genomic data in basic biomedical research, genomic clinical trials and personalized med...

  16. Fetal Kidney Anomalies: Next Generation Sequencing

    DEFF Research Database (Denmark)

    Rasmussen, Maria; Sunde, Lone; Nielsen, Marlene Louise

    Aim and Introduction Identification of abnormal kidneys in the fetus may lead to termination of the pregnancy and raises questions about the underlying cause and recurrence risk in future pregnancies. In this study, we investigate the effectiveness of targeted next generation sequencing in fetuses...... with prenatally detected kidney anomalies in order to uncover genetic explanations and assess recurrence risk. Also, we aim to study the relation between genetic findings and post mortem kidney histology. Methods The study comprises fetuses diagnosed prenatally with bilateral kidney anomalies that have undergone...... postmortem examination. The approximately 110 genes included in the targeted panel were chosen on the basis of their potential involvement in embryonic kidney development, cystic kidney disease, or the renin-angiotensin system. DNA was extracted from fetal tissue samples or cultured chorion villus cells...

  17. Astro Data Science: The Next Generation

    Science.gov (United States)

    Mentzel, Chris

    2018-01-01

    Astronomers have been at the forefront of data-driven discovery since before the days of Kepler. Using data in the scientific inquiry into the workings of the the universe is the lifeblood of the field. This said, data science is considered a new thing, and researchers from every discipline are rushing to learn data science techniques, train themselves on data science tools, and even leaving academia to become data scientists. It is undeniable that our ability to harness new computational and statistical methods to make sense of today’s unprecedented size, complexity, and fast streaming data is helping scientists make new discoveries. The question now is how to ensure that researchers can employ these tools and use them appropriately. This talk will cover the state of data science as it relates to scientific research and the role astronomers play in its development, use, and training the next generation of astro-data scientists.

  18. Transcriptome Analysis of the Small Brown Planthopper, Laodelphax striatellus Carrying Rice stripe virus

    Directory of Open Access Journals (Sweden)

    Joo Hyun Lee

    2013-09-01

    Full Text Available Rice stripe virus (RSV, the type member of the genus Tenuivirus, transmits by the feeding behavior of small brown planthopper (SBPH, Laodelphax striatellus. To investigate the interactions between the virus and vector insect, total RNA was extracted from RSV-viruliferous SBPH (RVLS and non-viruliferous SBPH (NVLS adults to construct expressed sequence tag databases for comparative transcriptome analysis. Over 30 million bases were sequenced by 454 pyrosequencing to construct 1,538 and 953 of isotigs from the mRNA of RVLS and NVLS, respectively. The gene ontology (GO analysis demonstrated that both libraries have similar GO structures, however, the gene expression pattern analysis revealed that 17.8% and 16.8% of isotigs were up- and down-regulated significantly in the RVLS, respectively. These RSV-dependently regulated genes possibly have important roles in the physiology of SBPH, transmission of RSV, and RSV and SBPH interaction.

  19. Understanding the immune system architecture and transcriptome responses to southern rice black-streaked dwarf virus in Sogatella furcifera.

    Science.gov (United States)

    Wang, Lin; Tang, Nan; Gao, Xinlei; Guo, Dongyang; Chang, Zhaoxia; Fu, Yating; Akinyemi, Ibukun A; Wu, Qingfa

    2016-11-02

    Sogatella furcifera, the white-backed planthopper (WBPH), has become one of the most destructive pests in rice production owing to its plant sap-sucking behavior and efficient transmission of Southern rice black-streaked dwarf virus (SRBSDV) in a circulative, propagative and persistent manner. The dynamic and complex SRBSDV-WBPH-rice plant interaction is still poorly understood. In this study, based on a homology-based genome-wide analysis, 348 immune-related genes belonging to 28 families were identified in WBPH. A transcriptome analysis of non-viruliferous (NVF) and viruliferous groups with high viral titers (HVT) and median viral titers (MVT) revealed that feeding on SRBSDV-infected rice plants has a significant impact on gene expression, regardless of viral titers in insects. We identified 278 up-regulated and 406 down-regulated genes shared among the NVF, MVT, and HVT groups and detected significant down-regulation of primary metabolism-related genes and oxidoreductase. In viruliferous WBPH with viral titer-specific transcriptome changes, 1,906 and 1,467 genes exhibited strict monotonically increasing and decreasing expression, respectively. The RNAi pathway was the major antiviral response to increasing viral titers among diverse immune responses. These results clarify the responses of immune genes and the transcriptome of WBPH to SRBSDV and improve our knowledge of the functional relationship between pathogen, vector, and host.

  20. Transcriptome analysis of fat bodies from two brown planthopper (Nilaparvata lugens populations with different virulence levels in rice.

    Directory of Open Access Journals (Sweden)

    Haixin Yu

    Full Text Available BACKGROUND: The brown planthopper (BPH, Nilaparvata lugens (Stål, one of the most serious rice insect pests in Asia, can quickly overcome rice resistance by evolving new virulent populations. The insect fat body plays essential roles in the life cycles of insects and in plant-insect interactions. However, whether differences in fat body transcriptomes exist between insect populations with different virulence levels and whether the transcriptomic differences are related to insect virulence remain largely unknown. METHODOLOGY/PRINCIPAL FINDINGS: In this study, we performed transcriptome-wide analyses on the fat bodies of two BPH populations with different virulence levels in rice. The populations were derived from rice variety TN1 (TN1 population and Mudgo (M population. In total, 33,776 and 32,332 unigenes from the fat bodies of TN1 and M populations, respectively, were generated using Illumina technology. Gene ontology annotations and Kyoto Encyclopedia of Genes and Genomes (KEGG orthology classifications indicated that genes related to metabolism and immunity were significantly active in the fat bodies. In addition, a total of 339 unigenes showed homology to genes of yeast-like symbionts (YLSs from 12 genera and endosymbiotic bacteria Wolbachia. A comparative analysis of the two transcriptomes generated 7,860 differentially expressed genes. GO annotations and enrichment analysis of KEGG pathways indicated these differentially expressed transcripts might be involved in metabolism and immunity. Finally, 105 differentially expressed genes from YLSs and Wolbachia were identified, genes which might be associated with the formation of different virulent populations. CONCLUSIONS/SIGNIFICANCE: This study was the first to compare the fat-body transcriptomes of two BPH populations having different virulence traits and to find genes that may be related to this difference. Our findings provide a molecular resource for future investigations of fat bodies

  1. Transcriptome Analysis of Fat Bodies from Two Brown Planthopper (Nilaparvata lugens) Populations with Different Virulence Levels in Rice

    Science.gov (United States)

    Chen, Hongdan; Lai, Wenxiang; Fu, Qiang; Lou, Yonggen

    2014-01-01

    Background The brown planthopper (BPH), Nilaparvata lugens (Stål), one of the most serious rice insect pests in Asia, can quickly overcome rice resistance by evolving new virulent populations. The insect fat body plays essential roles in the life cycles of insects and in plant-insect interactions. However, whether differences in fat body transcriptomes exist between insect populations with different virulence levels and whether the transcriptomic differences are related to insect virulence remain largely unknown. Methodology/Principal Findings In this study, we performed transcriptome-wide analyses on the fat bodies of two BPH populations with different virulence levels in rice. The populations were derived from rice variety TN1 (TN1 population) and Mudgo (M population). In total, 33,776 and 32,332 unigenes from the fat bodies of TN1 and M populations, respectively, were generated using Illumina technology. Gene ontology annotations and Kyoto Encyclopedia of Genes and Genomes (KEGG) orthology classifications indicated that genes related to metabolism and immunity were significantly active in the fat bodies. In addition, a total of 339 unigenes showed homology to genes of yeast-like symbionts (YLSs) from 12 genera and endosymbiotic bacteria Wolbachia. A comparative analysis of the two transcriptomes generated 7,860 differentially expressed genes. GO annotations and enrichment analysis of KEGG pathways indicated these differentially expressed transcripts might be involved in metabolism and immunity. Finally, 105 differentially expressed genes from YLSs and Wolbachia were identified, genes which might be associated with the formation of different virulent populations. Conclusions/Significance This study was the first to compare the fat-body transcriptomes of two BPH populations having different virulence traits and to find genes that may be related to this difference. Our findings provide a molecular resource for future investigations of fat bodies and will be useful

  2. Transcriptome analysis of fat bodies from two brown planthopper (Nilaparvata lugens) populations with different virulence levels in rice.

    Science.gov (United States)

    Yu, Haixin; Ji, Rui; Ye, Wenfeng; Chen, Hongdan; Lai, Wenxiang; Fu, Qiang; Lou, Yonggen

    2014-01-01

    The brown planthopper (BPH), Nilaparvata lugens (Stål), one of the most serious rice insect pests in Asia, can quickly overcome rice resistance by evolving new virulent populations. The insect fat body plays essential roles in the life cycles of insects and in plant-insect interactions. However, whether differences in fat body transcriptomes exist between insect populations with different virulence levels and whether the transcriptomic differences are related to insect virulence remain largely unknown. In this study, we performed transcriptome-wide analyses on the fat bodies of two BPH populations with different virulence levels in rice. The populations were derived from rice variety TN1 (TN1 population) and Mudgo (M population). In total, 33,776 and 32,332 unigenes from the fat bodies of TN1 and M populations, respectively, were generated using Illumina technology. Gene ontology annotations and Kyoto Encyclopedia of Genes and Genomes (KEGG) orthology classifications indicated that genes related to metabolism and immunity were significantly active in the fat bodies. In addition, a total of 339 unigenes showed homology to genes of yeast-like symbionts (YLSs) from 12 genera and endosymbiotic bacteria Wolbachia. A comparative analysis of the two transcriptomes generated 7,860 differentially expressed genes. GO annotations and enrichment analysis of KEGG pathways indicated these differentially expressed transcripts might be involved in metabolism and immunity. Finally, 105 differentially expressed genes from YLSs and Wolbachia were identified, genes which might be associated with the formation of different virulent populations. This study was the first to compare the fat-body transcriptomes of two BPH populations having different virulence traits and to find genes that may be related to this difference. Our findings provide a molecular resource for future investigations of fat bodies and will be useful in examining the interactions between the fat body and virulence

  3. Transcriptomic Analysis of Responses to Imbalanced Carbon: Nitrogen Availabilities in Rice Seedlings.

    Directory of Open Access Journals (Sweden)

    Aobo Huang

    Full Text Available The internal C:N balance must be tightly controlled for the normal growth and development of plants. However, the underlying mechanisms, by which plants sense and balance the intracellular C:N status correspondingly to exogenous C:N availabilities remain elusive. In this study, we use comparative gene expression analysis to identify genes that are responsive to imbalanced C:N treatments in the aerial parts of rice seedlings. Transcripts of rice seedlings treated with four C:N availabilities (1:1, 1:60, 60:1 and 60:60 were compared and two groups of genes were classified: high C:low N responsive genes and low C:high N responsive genes. Our analysis identified several functional correlated genes including chalcone synthase (CHS, chlorophyll a-b binding protein (CAB and other genes that are implicated in C:N balancing mechanism, such as alternative oxidase 1B (OsAOX1B, malate dehydrogenase (OsMDH and lysine and histidine specific transporter 1 (OsLHT1. Additionally, six jasmonate synthetic genes and key regulatory genes involved in abiotic and biotic stresses, such as OsMYB4, autoinhibited calcium ATPase 3 (OsACA3 and pleiotropic drug resistance 9 (OsPDR9, were differentially expressed under high C:low N treatment. Gene ontology analysis showed that high C:low N up-regulated genes were primarily enriched in fatty acid biosynthesis and defense responses. Coexpression network analysis of these genes identified eight jasmonate ZIM domain protein (OsJAZ genes and several defense response related regulators, suggesting that high C:low N status may act as a stress condition, which induces defense responses mediated by jasmonate signaling pathway. Our transcriptome analysis shed new light on the C:N balancing mechanisms and revealed several important regulators of C:N status in rice seedlings.

  4. Next Generation Carbon-Nitrogen Dynamics Model

    Science.gov (United States)

    Xu, C.; Fisher, R. A.; Vrugt, J. A.; Wullschleger, S. D.; McDowell, N. G.

    2012-12-01

    Nitrogen is a key regulator of vegetation dynamics, soil carbon release, and terrestrial carbon cycles. Thus, to assess energy impacts on the global carbon cycle and future climates, it is critical that we have a mechanism-based and data-calibrated nitrogen model that simulates nitrogen limitation upon both above and belowground carbon dynamics. In this study, we developed a next generation nitrogen-carbon dynamic model within the NCAR Community Earth System Model (CESM). This next generation nitrogen-carbon dynamic model utilized 1) a mechanistic model of nitrogen limitation on photosynthesis with nitrogen trade-offs among light absorption, electron transport, carboxylation, respiration and storage; 2) an optimal leaf nitrogen model that links soil nitrogen availability and leaf nitrogen content; and 3) an ecosystem demography (ED) model that simulates the growth and light competition of tree cohorts and is currently coupled to CLM. Our three test cases with changes in CO2 concentration, growing temperature and radiation demonstrate the model's ability to predict the impact of altered environmental conditions on nitrogen allocations. Currently, we are testing the model against different datasets including soil fertilization and Free Air CO2 enrichment (FACE) experiments across different forest types. We expect that our calibrated model will considerably improve our understanding and predictability of vegetation-climate interactions.itrogen allocation model evaluations. The figure shows the scatter plots of predicted and measured Vc,max and Jmax scaled to 25 oC (i.e.,Vc,max25 and Jmax25) at elevated CO2 (570 ppm, test case one), reduced radiation in canopy (0.1-0.9 of the radiation at the top of canopy, test case two) and reduced growing temperature (15oC, test case three). The model is first calibrated using control data under ambient CO2 (370 ppm), radiation at the top of the canopy (621 μmol photon/m2/s), the normal growing temperature (30oC). The fitted model

  5. Nuclear Knowledge to the Next Generation

    International Nuclear Information System (INIS)

    Mazour, Thomas; Kossilov, Andrei

    2004-01-01

    The safe, reliable, and cost-effective operation of Nuclear Power Plants (NPPs) requires that personnel possess and maintain the requisite knowledge, skills, and attitudes to do their jobs properly. Such knowledge includes not only the technical competencies required by the nature of the technology and particular engineering designs, but also the softer competencies associated with effective management, communication and teamwork. Recent studies have shown that there has been a loss of corporate knowledge and memory. Both explicit knowledge and tacit knowledge must be passed on to the next generation of workers in the industry to ensure a quality workforce. New and different techniques may be required to ensure timely and effective knowledge retention and transfer. The IAEA prepared a report on this subject. The main conclusions from the report regarding strategies for managing the aging workforce are included. Also included are main conclusions from the report regarding the capture an d preservation of mission critical knowledge, and the effective transfer of this knowledge to the next generation of NPP personnel. The nuclear industry due to its need for well-documented procedures, specifications, design basis, safety analyses, etc., has a greater fraction of its mission critical knowledge as explicit knowledge than do many other industries. This facilitates the task of knowledge transfer. For older plants in particular, there may be a need for additional efforts to transfer tacit knowledge to explicit knowledge to support major strategic initiatives such as plant license extensions/renewals, periodic safety reviews, major plant upgrades, and plant specific control room simulator development. The challenge in disseminating explicit knowledge is to make employees aware that it is available and provide easy access in formats and forms that are usable. Tacit knowledge is more difficult to identify and disseminate. The challenge is to identify what can be converted to

  6. Digital Earth reloaded - Beyond the next generation

    Science.gov (United States)

    Ehlers, M.; Woodgate, P.; Annoni, A.; Schade, S.

    2014-02-01

    Digital replicas (or 'mirror worlds') of complex entities and systems are now routine in many fields such as aerospace engineering; archaeology; medicine; or even fashion design. The Digital Earth (DE) concept as a digital replica of the entire planet occurs in Al Gore's 1992 book Earth in the Balance and was popularized in his speech at the California Science Center in January 1998. It played a pivotal role in stimulating the development of a first generation of virtual globes, typified by Google Earth that achieved many elements of this vision. Almost 15 years after Al Gore's speech, the concept of DE needs to be re-evaluated in the light of the many scientific and technical developments in the fields of information technology, data infrastructures, citizen?s participation, and earth observation that have taken place since. This paper intends to look beyond the next generation predominantly based on the developments of fields outside the spatial sciences, where concepts, software, and hardware with strong relationships to DE are being developed without referring to this term. It also presents a number of guiding criteria for future DE developments.

  7. Next Generation Germanium Systems for Safeguards Applications

    International Nuclear Information System (INIS)

    Dreyer, J.; Burks, M.; Hull, E.

    2015-01-01

    We are developing the latest generation of highly portable, mechanically cooled germanium systems for safeguard applications. In collaboration with our industrial partner, Ph.D.s Co, we have developed the Germanium Gamma Ray Imager (GeGI), an imager with a 2π field of view. This instrument has been thoroughly field tested in a wide range of environments and have performed reliably even in the harshest conditions. The imaging capability of GeGI complements existing safeguards techniques by allowing for the spatial detection, identification, and characterization of nuclear material. Additionally, imaging can be used in design information verification activities to address potential material diversions. Measurements conducted at the Paducah Gaseous Diffusion Plant highlight the advantages this instrument offers in the identification and localization of LEU, HEU and Pu holdup. GeGI has also been deployed to the Savannah River Site for the measurement of radioactive waste canisters, providing information valuable for waste characterization and inventory accountancy. Measuring 30 x 15 x 23 cm and weighing approximately 15 kg, this instrument is the first portable germanium-based imager. GeGI offers high reliability with the convenience of mechanical cooling, making this instrument ideal for the next generation of safeguards instrumentation. (author)

  8. Next Generation Nuclear Plant GAP Analysis Report

    Energy Technology Data Exchange (ETDEWEB)

    Ball, Sydney J [ORNL; Burchell, Timothy D [ORNL; Corwin, William R [ORNL; Fisher, Stephen Eugene [ORNL; Forsberg, Charles W. [Massachusetts Institute of Technology (MIT); Morris, Robert Noel [ORNL; Moses, David Lewis [ORNL

    2008-12-01

    As a follow-up to the phenomena identification and ranking table (PIRT) studies conducted recently by NRC on next generation nuclear plant (NGNP) safety, a study was conducted to identify the significant 'gaps' between what is needed and what is already available to adequately assess NGNP safety characteristics. The PIRT studies focused on identifying important phenomena affecting NGNP plant behavior, while the gap study gives more attention to off-normal behavior, uncertainties, and event probabilities under both normal operation and postulated accident conditions. Hence, this process also involved incorporating more detailed evaluations of accident sequences and risk assessments. This study considers thermal-fluid and neutronic behavior under both normal and postulated accident conditions, fission product transport (FPT), high-temperature metals, and graphite behavior and their effects on safety. In addition, safety issues related to coupling process heat (hydrogen production) systems to the reactor are addressed, given the limited design information currently available. Recommendations for further study, including analytical methods development and experimental needs, are presented as appropriate in each of these areas.

  9. Next Generation Sequencing of Tubal Intraepithelial Carcinomas

    Science.gov (United States)

    McDaniel, Andrew S.; Stall, Jennifer N.; Hovelson, Daniel H.; Cani, Andi K.; Liu, Chia-Jen; Tomlins, Scott A.; Cho, Kathleen R.

    2016-01-01

    Importance High-grade serous carcinoma (HGSC) is the most prevalent and lethal form of ovarian cancer. HGSCs frequently arise in the distal fallopian tubes rather than the ovary, developing from small precursor lesions called serous tubal intraepithelial carcinomas (TICs or more specifically STICs). While STICs have been reported to harbor TP53 mutations, detailed molecular characterizations of these lesions are lacking. Observations We performed targeted next generation sequencing (NGS) on formalin-fixed, paraffin- embedded tissue from four women, two with HGSC and two with uterine endometrioid carcinoma (UEC) who were diagnosed with synchronous STICs. We detected concordant mutations in both HGSCs with synchronous STICs, including TP53 mutations as well as assumed germline BRCA1/2 alterations, confirming a clonal relationship between these lesions. NGS confirmed the presence of a STIC clonally unrelated to one case of UEC. NGS of the other tubal lesion diagnosed as a STIC unexpectedly supported the lesion as a micrometastasis from the associated UEC. Conclusions and Relevance We demonstrate that targeted NGS can identify genetic lesions in minute lesions such as TICs, and confirm TP53 mutations as early driving events for HGSC. NGS also demonstrated unexpected relationships between presumed STICs and synchronous carcinomas, suggesting potential diagnostic and translational research applications. PMID:26181193

  10. Next Generation Life Support Project Status

    Science.gov (United States)

    Barta, Daniel J.; Chullen, Cinda; Vega, Leticia; Cox, Marlon R.; Aitchison, Lindsay T.; Lange, Kevin E.; Pensinger, Stuart J.; Meyer, Caitlin E.; Flynn, Michael; Jackson, W. Andrew; hide

    2014-01-01

    Next Generation Life Support (NGLS) is one of over twenty technology development projects sponsored by NASA's Game Changing Development Program. The NGLS Project develops selected life support technologies needed for humans to live and work productively in space, with focus on technologies for future use in spacecraft cabin and space suit applications. Over the last three years, NGLS had five main project elements: Variable Oxygen Regulator (VOR), Rapid Cycle Amine (RCA) swing bed, High Performance (HP) Extravehicular Activity (EVA) Glove, Alternative Water Processor (AWP) and Series-Bosch Carbon Dioxide Reduction. The RCA swing bed, VOR and HP EVA Glove tasks are directed at key technology needs for the Portable Life Support System (PLSS) and pressure garment for an Advanced Extravehicular Mobility Unit (EMU). Focus is on prototyping and integrated testing in cooperation with the Advanced Exploration Systems (AES) Advanced EVA Project. The HP EVA Glove Element, new this fiscal year, includes the generation of requirements and standards to guide development and evaluation of new glove designs. The AWP and Bosch efforts focus on regenerative technologies to further close spacecraft cabin atmosphere revitalization and water recovery loops and to meet technology maturation milestones defined in NASA's Space Technology Roadmaps. These activities are aimed at increasing affordability, reliability, and vehicle self-sufficiency while decreasing mass and mission cost, supporting a capability-driven architecture for extending human presence beyond low-Earth orbit, along a human path toward Mars. This paper provides a status of current technology development activities with a brief overview of future plans.

  11. Next Generation Life Support Project Status

    Science.gov (United States)

    Barta, Daniel J.; Chullen, Cinda; Pickering, Karen D.; Cox, Marlon; Towsend, Neil; Campbell, Colin; Flynn, Michael; Wheeler, Raymond

    2012-01-01

    Next Generation Life Support (NGLS) is one of several technology development projects sponsored by NASA s Game Changing Development Program. The NGLS Project is developing life support technologies (including water recovery and space suit life support technologies) needed for humans to live and work productively in space. NGLS has three project tasks: Variable Oxygen Regulator (VOR), Rapid Cycle Amine (RCA) swing bed, and Alternative Water Processor (AWP). The RCA swing bed and VOR tasks are directed at key technology needs for the Portable Life Support System (PLSS) for an Advanced Extravehicular Mobility Unit, with focus on test article development and integrated testing in an Advanced PLSS in cooperation with the Advanced Extra Vehicular Activity (EVA) Project. An RCA swing-bed provides integrated carbon dioxide removal and humidity control that can be regenerated in real time during an EVA. The VOR technology will significantly increase the number of pressure settings available to the space suit. Current space suit pressure regulators are limited to only two settings whereas the adjustability of the advanced regulator will be nearly continuous. The AWP effort, based on natural biological processes and membrane-based secondary treatment, will result in the development of a system capable of recycling wastewater from sources expected in future exploration missions, including hygiene and laundry water. This paper will provide a status of technology development activities and future plans.

  12. Next Generation Nuclear Plant System Requirements Manual

    International Nuclear Information System (INIS)

    Not Listed

    2008-01-01

    System Requirements Manual for the NGNP Project. The Energy Policy Act of 2005 (H.R. 6; EPAct), which was signed into law by President George W. Bush in August 2005, required the Secretary of the U.S. Department of Energy (DOE) to establish a project to be known as the Next Generation Nuclear Plant (NGNP) Project. According to the EPAct, the NGNP Project shall consist of the research, development, design, construction, and operation of a prototype plant (to be referred to herein as the NGNP) that (1) includes a nuclear reactor based on the research and development (R and D) activities supported by the Generation IV Nuclear Energy Systems initiative, and (2) shall be used to generate electricity, to produce hydrogen, or to both generate electricity and produce hydrogen. The NGNP Project supports both the national need to develop safe, clean, economical nuclear energy and the Nuclear Hydrogen Initiative (NHI), which has the goal of establishing greenhouse-gas-free technologies for the production of hydrogen. The DOE has selected the helium-cooled High Temperature Gas-Cooled Reactor (HTGR) as the reactor concept to be used for the NGNP because it is the only near-term Generation IV concept that has the capability to provide process heat at high-enough temperatures for highly efficient production of hydrogen. The EPAct also names the Idaho National Laboratory (INL), the DOE's lead national laboratory for nuclear energy research, as the site for the prototype NGNP

  13. Next generation advanced nuclear reactor designs

    International Nuclear Information System (INIS)

    Turgut, M. H.

    2009-01-01

    Growing energy demand by technological developments and the increase of the world population and gradually diminishing energy resources made nuclear power an indispensable option. The renewable energy sources like solar, wind and geothermal may be suited to meet some local needs. Environment friendly nuclear energy which is a suitable solution to large scale demands tends to develop highly economical, advanced next generation reactors by incorporating technological developments and years of operating experience. The enhancement of safety and reliability, facilitation of maintainability, impeccable compatibility with the environment are the goals of the new generation reactors. The protection of the investment and property is considered as well as the protection of the environment and mankind. They became economically attractive compared to fossil-fired units by the use of standard designs, replacing some active systems by passive, reducing construction time and increasing the operation lifetime. The evolutionary designs were introduced at first by ameliorating the conventional plants, than revolutionary systems which are denoted as generation IV were verged to meet future needs. The investigations on the advanced, proliferation resistant fuel cycle technologies were initiated to minimize the radioactive waste burden by using new generation fast reactors and ADS transmuters.

  14. Implementing Elementary School Next Generation Science Standards

    Science.gov (United States)

    Kennedy, Katheryn B.

    Implementation of the Next Generation Science Standards requires developing elementary teacher content and pedagogical content knowledge of science and engineering concepts. Teacher preparation for this undertaking appears inadequate with little known about how in-service Mid-Atlantic urban elementary science teachers approach this task. The purpose of this basic qualitative interview study was to explore the research questions related to perceived learning needs of 8 elementary science teachers and 5 of their administrators serving as instructional leaders. Strategies needed for professional growth to support learning and barriers that hamper it at both building and district levels were included. These questions were considered through the lens of Schon's reflective learning and Weick's sensemaking theories. Analysis with provisional and open coding strategies identified informal and formal supports and barriers to teachers' learning. Results indicated that informal supports, primarily internet usage, emerged as most valuable to the teachers' learning. Formal structures, including professional learning communities and grade level meetings, arose as both supportive and restrictive at the building and district levels. Existing formal supports emerged as the least useful because of the dominance of other priorities competing for time and resources. Addressing weaknesses within formal supports through more effective planning in professional development can promote positive change. Improvement to professional development approaches using the internet and increased hands on activities can be integrated into formal supports. Explicit attention to these strategies can strengthen teacher effectiveness bringing positive social change.

  15. Next generation environment for collaborative research

    International Nuclear Information System (INIS)

    Collados, D.; Denis, G.; Galvez, P.; Newman, H.

    2001-01-01

    Collaborative environments supporting point to point and multipoint video-conferencing, document and application sharing across both local and wide area networks, video on demand (broadcast and playback) and interactive text facilities will be a crucial element for the development of the next generation of HEP experiments by geographically dispersed collaborations. The 'Virtual Room Video conferencing System' (VRVS) has been developed since 1995, in order to provide a low cost, bandwidth-efficient, extensible means for video conferencing and remote collaboration over networks within the High Energy and Nuclear Physics communities. The VRVS provides worldwide videoconferencing service and collaborative environment to the research and education communities. VRVS uses the Internet2 and ESnet high-performance networks infrastructure to deploy its Web-based system, which now includes more than 5790 registered hosts running VRVS software in more than 50 different countries. VRVS hosts an average of 100-multipoint videoconference and collaborative sessions worldwide every month. There are around 35 reflectors that manage the traffic flow, at HENP labs and universities in the US and Europe. So far, there are 7 Virtual Rooms for World Wide Conferences (involving more than one continent), and 4 Virtual Rooms each for intra-continental conferences in the US, Europe and Asia. VRVS continues to expand and implement new digital video technologies, including H.323 ITU standard integration, MPEG-2 videoconferencing integration, shared environments, and Quality of Service

  16. (U) Ristra Next Generation Code Report

    Energy Technology Data Exchange (ETDEWEB)

    Hungerford, Aimee L. [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Daniel, David John [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)

    2017-09-22

    LANL’s Weapons Physics management (ADX) and ASC program office have defined a strategy for exascale-class application codes that follows two supportive, and mutually risk-mitigating paths: evolution for established codes (with a strong pedigree within the user community) based upon existing programming paradigms (MPI+X); and Ristra (formerly known as NGC), a high-risk/high-reward push for a next-generation multi-physics, multi-scale simulation toolkit based on emerging advanced programming systems (with an initial focus on data-flow task-based models exemplified by Legion [5]). Development along these paths is supported by the ATDM, IC, and CSSE elements of the ASC program, with the resulting codes forming a common ecosystem, and with algorithm and code exchange between them anticipated. Furthermore, solution of some of the more challenging problems of the future will require a federation of codes working together, using established-pedigree codes in partnership with new capabilities as they come on line. The role of Ristra as the high-risk/high-reward path for LANL’s codes is fully consistent with its role in the Advanced Technology Development and Mitigation (ATDM) sub-program of ASC (see Appendix C), in particular its emphasis on evolving ASC capabilities through novel programming models and data management technologies.

  17. Tailoring next-generation biofuels and their combustion in next-generation engines

    Energy Technology Data Exchange (ETDEWEB)

    Gladden, John Michael [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Wu, Weihua [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Taatjes, Craig A. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Scheer, Adam Michael [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Turner, Kevin M. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Yu, Eizadora T. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); O' Bryan, Greg [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Powell, Amy Jo [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Gao, Connie W. [Massachusetts Inst. of Technology (MIT), Cambridge, MA (United States)

    2013-11-01

    Increasing energy costs, the dependence on foreign oil supplies, and environmental concerns have emphasized the need to produce sustainable renewable fuels and chemicals. The strategy for producing next-generation biofuels must include efficient processes for biomass conversion to liquid fuels and the fuels must be compatible with current and future engines. Unfortunately, biofuel development generally takes place without any consideration of combustion characteristics, and combustion scientists typically measure biofuels properties without any feedback to the production design. We seek to optimize the fuel/engine system by bringing combustion performance, specifically for advanced next-generation engines, into the development of novel biosynthetic fuel pathways. Here we report an innovative coupling of combustion chemistry, from fundamentals to engine measurements, to the optimization of fuel production using metabolic engineering. We have established the necessary connections among the fundamental chemistry, engine science, and synthetic biology for fuel production, building a powerful framework for co-development of engines and biofuels.

  18. Comparative transcriptome analysis of salivary glands of two populations of rice brown planthopper, Nilaparvata lugens, that differ in virulence.

    Directory of Open Access Journals (Sweden)

    Rui Ji

    Full Text Available BACKGROUND: The brown planthopper (BPH, Nilaparvata lugens (Stål, a destructive rice pest in Asia, can quickly overcome rice resistance by evolving new virulent populations. Herbivore saliva plays an important role in plant-herbivore interactions, including in plant defense and herbivore virulence. However, thus far little is known about BPH saliva at the molecular level, especially its role in virulence and BPH-rice interaction. METHODOLOGY/PRINCIPAL FINDINGS: Using cDNA amplification in combination with Illumina short-read sequencing technology, we sequenced the salivary-gland transcriptomes of two BPH populations with different virulence; the populations were derived from rice variety TN1 (TN1 population and Mudgo (M population. In total, 37,666 and 38,451 unigenes were generated from the salivary glands of these populations, respectively. When combined, a total of 43,312 unigenes were obtained, about 18 times more than the number of expressed sequence tags previously identified from these glands. Gene ontology annotations and KEGG orthology classifications indicated that genes related to metabolism, binding and transport were significantly active in the salivary glands. A total of 352 genes were predicted to encode secretory proteins, and some might play important roles in BPH feeding and BPH-rice interactions. Comparative analysis of the transcriptomes of the two populations revealed that the genes related to 'metabolism,' 'digestion and absorption,' and 'salivary secretion' might be associated with virulence. Moreover, 67 genes encoding putative secreted proteins were differentially expressed between the two populations, suggesting these genes may contribute to the change in virulence. CONCLUSIONS/SIGNIFICANCE: This study was the first to compare the salivary-gland transcriptomes of two BPH populations having different virulence traits and to find genes that may be related to this difference. Our data provide a rich molecular resource for

  19. Comparative transcriptome analysis of salivary glands of two populations of rice brown planthopper, Nilaparvata lugens, that differ in virulence.

    Science.gov (United States)

    Ji, Rui; Yu, Haixin; Fu, Qiang; Chen, Hongdan; Ye, Wenfeng; Li, Shaohui; Lou, Yonggen

    2013-01-01

    The brown planthopper (BPH), Nilaparvata lugens (Stål), a destructive rice pest in Asia, can quickly overcome rice resistance by evolving new virulent populations. Herbivore saliva plays an important role in plant-herbivore interactions, including in plant defense and herbivore virulence. However, thus far little is known about BPH saliva at the molecular level, especially its role in virulence and BPH-rice interaction. Using cDNA amplification in combination with Illumina short-read sequencing technology, we sequenced the salivary-gland transcriptomes of two BPH populations with different virulence; the populations were derived from rice variety TN1 (TN1 population) and Mudgo (M population). In total, 37,666 and 38,451 unigenes were generated from the salivary glands of these populations, respectively. When combined, a total of 43,312 unigenes were obtained, about 18 times more than the number of expressed sequence tags previously identified from these glands. Gene ontology annotations and KEGG orthology classifications indicated that genes related to metabolism, binding and transport were significantly active in the salivary glands. A total of 352 genes were predicted to encode secretory proteins, and some might play important roles in BPH feeding and BPH-rice interactions. Comparative analysis of the transcriptomes of the two populations revealed that the genes related to 'metabolism,' 'digestion and absorption,' and 'salivary secretion' might be associated with virulence. Moreover, 67 genes encoding putative secreted proteins were differentially expressed between the two populations, suggesting these genes may contribute to the change in virulence. This study was the first to compare the salivary-gland transcriptomes of two BPH populations having different virulence traits and to find genes that may be related to this difference. Our data provide a rich molecular resource for future functional studies on salivary glands and will be useful for elucidating the

  20. The Next Generation Transit Survey (NGTS)

    Science.gov (United States)

    Wheatley, Peter J.; West, Richard G.; Goad, Michael R.; Jenkins, James S.; Pollacco, Don L.; Queloz, Didier; Rauer, Heike; Udry, Stéphane; Watson, Christopher A.; Chazelas, Bruno; Eigmüller, Philipp; Lambert, Gregory; Genolet, Ludovic; McCormac, James; Walker, Simon; Armstrong, David J.; Bayliss, Daniel; Bento, Joao; Bouchy, François; Burleigh, Matthew R.; Cabrera, Juan; Casewell, Sarah L.; Chaushev, Alexander; Chote, Paul; Csizmadia, Szilárd; Erikson, Anders; Faedi, Francesca; Foxell, Emma; Gänsicke, Boris T.; Gillen, Edward; Grange, Andrew; Günther, Maximilian N.; Hodgkin, Simon T.; Jackman, James; Jordán, Andrés; Louden, Tom; Metrailler, Lionel; Moyano, Maximiliano; Nielsen, Louise D.; Osborn, Hugh P.; Poppenhaeger, Katja; Raddi, Roberto; Raynard, Liam; Smith, Alexis M. S.; Soto, Maritza; Titz-Weider, Ruth

    2018-04-01

    We describe the Next Generation Transit Survey (NGTS), which is a ground-based project searching for transiting exoplanets orbiting bright stars. NGTS builds on the legacy of previous surveys, most notably WASP, and is designed to achieve higher photometric precision and hence find smaller planets than have previously been detected from the ground. It also operates in red light, maximizing sensitivity to late K and early M dwarf stars. The survey specifications call for photometric precision of 0.1 per cent in red light over an instantaneous field of view of 100 deg2, enabling the detection of Neptune-sized exoplanets around Sun-like stars and super-Earths around M dwarfs. The survey is carried out with a purpose-built facility at Cerro Paranal, Chile, which is the premier site of the European Southern Observatory (ESO). An array of twelve 20 cm f/2.8 telescopes fitted with back-illuminated deep-depletion CCD cameras is used to survey fields intensively at intermediate Galactic latitudes. The instrument is also ideally suited to ground-based photometric follow-up of exoplanet candidates from space telescopes such as TESS, Gaia and PLATO. We present observations that combine precise autoguiding and the superb observing conditions at Paranal to provide routine photometric precision of 0.1 per cent in 1 h for stars with I-band magnitudes brighter than 13. We describe the instrument and data analysis methods as well as the status of the survey, which achieved first light in 2015 and began full-survey operations in 2016. NGTS data will be made publicly available through the ESO archive.

  1. OLEDs : Technology's next generation

    Energy Technology Data Exchange (ETDEWEB)

    Anon

    2001-10-01

    Major advances in organic light emitting device (OLED) technology are bringing some science fiction concepts to the brink of reality. At the moment. OLED technology is being developed for the flat panel display industry. Liquid crystal display dominates the market for wristwatches and cellular phones for example, while the cathode ray tube plays the same role for television sets and desktop computers. Both have limitations when it comes to meeting the needs of the next generation of smart products. The attributes required include high brightness, low power consumption, high definition, full colour, wide preview angle, fast response time and portability, and low cost. OLED has the potential to meet all those requirements. Universal Display Corporation (UDC) was founded, and specializes in the development and commercialization of OLED technology. A partnership was established early with Princeton University professors, and no fewer than 20 researchers are working on OLED technology projects at both Princeton University and the University of Southern California. To date, 35 patents have been issued, and 60 others are pending. A joint development agreement was reached with Sony Corporation this year for high efficiency active matrix OLEDs to be used in large area monitor applications. OLED technology is based on vacuum-deposited organic small molecule materials that emit very bright light when electrically stimulated. Three advances in the technology were briefly discussed: TOLED{sup TM} for Transparent OLED, SOLED{sup TM} for Stacked OLED, and FOLED{sup TM} for Flexible OLED. A list detailing the various potential uses for the technology was also included in this paper. 3 figs.

  2. Patterning techniques for next generation IC's

    Science.gov (United States)

    Balasinski, A.

    2007-12-01

    Reduction of linear critical dimensions (CDs) beyond 45 nm would require significant increase of the complexity of pattern definition process. In this work, we discuss the key successor methodology to the current optical lithography, the Double Patterning Technique (DPT). We compare the complexity of CAD solutions, fab equipment, and wafer processing with its competitors, such as the nanoimprint (NIL) and the extreme UV (EUV) techniques. We also look ahead to the market availability for the product families enabled using the novel patterning solutions. DPT is often recognized as the most viable next generation lithography as it utilizes the existing equipment and processes and is considered a stop-gap solution before the advanced NIL or EUV equipment is developed. Using design for manufacturability (DfM) rules, DPT can drive the k1 factor down to 0.13. However, it faces a variety of challenges, from new mask overlay strategies, to layout pattern split, novel OPC, increased CD tolerances, new etch techniques, as well as long processing time, all of which compromise its return on investment (RoI). In contrast, it can be claimed e.g., that the RoI is the highest for the NIL but this technology bears significant risk. For all novel patterning techniques, the key questions remain: when and how should they be introduced, what is their long-term potential, when should they be replaced, and by what successor technology. We summarize the unpublished results of several panel discussions on DPT at the recent SPIE/BACUS conferences.

  3. Next Generation Safeguards Initiative: 2010 and Beyond

    International Nuclear Information System (INIS)

    Whitney, J.M.; LaMontagne, S.; Sunshine, A.; Lockwood, D.; Peranteau, D.; Dupuy, G.

    2010-01-01

    Strengthening the international safeguards system is a key element of the U.S. non-proliferation policy agenda as evidenced by President Obama's call for more 'resources and authority to strengthen international inspections' in his April 2009 Prague speech. Through programs such as the recently-launched Next Generation Safeguards Initiative (NGSI) and the long standing U.S. Program of Technical Assistance to IAEA Safeguards, the United States is working to implement this vision. The U.S. Department of Energy's National Nuclear Security Administration launched NGSI in 2008 to develop the policies, concepts, technologies, expertise, and international safeguards infrastructure necessary to strengthen and sustain the international safeguards system as it evolves to meet new challenges. Following a successful 2009, NGSI has made significant progress toward these goals in 2010. NGSI has recently completed a number of policy studies on advanced safeguards concepts and sponsored several workshops, including a second international meeting on Harmonization of International Safeguards Infrastructure Development in Vienna. The program is also continuing multi-year projects to investigate advanced non-destructive assay techniques, enhance recruitment and training efforts, and strengthen international cooperation on safeguards. In December 2010, NGSI will host the Third Annual International Meeting on International Safeguards in Washington, DC, which will draw together key stakeholders from government, the nuclear industry, and the IAEA to further develop and promote a common understanding of Safeguards by Design principles and goals, and to identify opportunities for practical application of the concept. This paper presents a review of NGSI program activities in 2010 and previews plans for upcoming activities. (author)

  4. Next-generation healthcare: a strategic appraisal.

    Science.gov (United States)

    Montague, Terrence

    2009-01-01

    Successful next-generation healthcare must deliver timely access and quality for an aging population, while simultaneously promoting disease prevention and managing costs. The key factors for sustained success are a culture with aligned goals and values; coordinated team care that especially engages with physicians and patients; practical information that is collected and communicated reliably; and education in the theory and methods of collaboration, measurement and leadership. Currently, optimal population health is challenged by a high prevalence of chronic disease, with large gaps between best and usual care, a scarcity of health human resources - particularly with the skills, attitudes and training for coordinated team care - and the absence of flexible, reliable clinical measurement systems. However, to make things better, institutional models and supporting technologies are available. In the short term, a first step is to enhance the awareness of the practical opportunities to improve, including the expansion of proven community-based disease management programs that communicate knowledge, competencies and clinical measurements among professional and patient partners, leading to reduced care gaps and improved clinical and economic outcomes. Longer-term success requires two additional steps. One is formal inter-professional training to provide, on an ongoing basis, the polyvalent human resource skills and foster the culture of working with others to improve the care of whole populations. The other is the adoption of reliable information systems, including electronic health records, to allow useful and timely measurement and effective communication of clinical information in real-world settings. A better health future can commence immediately, within existing resources, and be sustained with feasible innovations in provider and patient education and information systems. The future is now.

  5. Next Generation Melter Optioneering Study - Interim Report

    International Nuclear Information System (INIS)

    Gray, M.F.; Calmus, R.B.; Ramsey, G.; Lomax, J.; Allen, H.

    2010-01-01

    The next generation melter (NOM) development program includes a down selection process to aid in determining the recommended vitrification technology to implement into the WTP at the first melter change-out which is scheduled for 2025. This optioneering study presents a structured value engineering process to establish and assess evaluation criteria that will be incorporated into the down selection process. This process establishes an evaluation framework that will be used progressively throughout the NGM program, and as such this interim report will be updated on a regular basis. The workshop objectives were achieved. In particular: (1) Consensus was reached with stakeholders and technology providers represented at the workshop regarding the need for a decision making process and the application of the D 2 0 process to NGM option evaluation. (2) A framework was established for applying the decision making process to technology development and evaluation between 2010 and 2013. (3) The criteria for the initial evaluation in 2011 were refined and agreed with stakeholders and technology providers. (4) The technology providers have the guidance required to produce data/information to support the next phase of the evaluation process. In some cases it may be necessary to reflect the data/information requirements and overall approach to the evaluation of technology options against specific criteria within updated Statements of Work for 2010-2011. Access to the WTP engineering data has been identified as being very important for option development and evaluation due to the interface issues for the NGM and surrounding plant. WRPS efforts are ongoing to establish precisely data that is required and how to resolve this Issue. It is intended to apply a similarly structured decision making process to the development and evaluation of LAW NGM options.

  6. Candu technology: the next generation now

    International Nuclear Information System (INIS)

    Hopwood, J.M.; Duffey, R.B.; Torgerson, D.F.

    2001-01-01

    We describe the development philosophy, direction and concepts that are being utilized by AECL to refine the CANDU reactor to meet the needs of current and future competitive energy markets. The technology development path for CANDU reactors is based on the optimization of the pressure tube concept. Because of the inherent modularity and flexibility of this basis for the core design, it is possible to provide a seamless and continuous evolution of the reactor design and performance. There is no need for a drastic shift in concept, in technology or in fuel. By continual refinement of the flow and materials conditions in the channels, the basic reactor can be thermally and operationally efficient, highly competitive and economic, and highly flexible in application. Thus, the design can build on the successful construction and operating experience of the existing plants, and no step changes in development direction are needed. This approach minimizes investor, operator and development risk but still provides technological, safety and performance advances. In today's world energy markets, major drivers for the technology development are: (a) reduced capital cost; (b) improved operation; (c) enhanced safety; and (d) fuel cycle flexibility. The drivers provide specific numerical targets. Meeting these drivers ensures that the concept meets and exceeds the customer economic, performance, safety and resource use goals and requirements, including the suitable national and international standards. This logical development of the CANDU concept leads naturally to the 'Next Generation' of CANDU reactors. The major features under development include an optimized lattice for SEU (slightly enriched uranium) fuel, light water cooling coupled with heavy water moderation, advanced fuel channels and CANFLEX fuel, optimization of plant performance, enhanced thermal and BOP (balance of plant) efficiency, and the adoption of layout and construction technology adapted from successful on

  7. Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi.

    Science.gov (United States)

    Matić, Slavica; Bagnaresi, Paolo; Biselli, Chiara; Orru', Luigi; Amaral Carneiro, Greice; Siciliano, Ilenia; Valé, Giampiero; Gullino, Maria Lodovica; Spadaro, Davide

    2016-08-11

    Fusarium fujikuroi is the causal agent of bakanae, the most significant seed-borne disease of rice. Molecular mechanisms regulating defence responses of rice towards this fungus are not yet fully known. To identify transcriptional mechanisms underpinning rice resistance, a RNA-seq comparative transcriptome profiling was conducted on infected seedlings of selected rice genotypes at one and three weeks post germination (wpg). Twelve rice genotypes were screened against bakanae disease leading to the identification of Selenio and Dorella as the most resistant and susceptible cultivars, respectively. Transcriptional changes were more appreciable at 3 wpg, suggesting that this infection stage is essential to study the resistance mechanisms: 3,119 DEGs were found in Selenio and 5,095 in Dorella. PR1, germin-like proteins, glycoside hydrolases, MAP kinases, and WRKY transcriptional factors were up-regulated in the resistant genotype upon infection with F. fujikuroi. Up-regulation of chitinases and down-regulation of MAP kinases and WRKY transcriptional factors were observed in the susceptible genotype. Gene ontology (GO) enrichment analyses detected in Selenio GO terms specific to response to F. fujikuroi: 'response to chitin', 'jasmonic acid biosynthetic process', and 'plant-type hypersensitive response', while Dorella activated different mechanisms, such as 'response to salicylic acid stimulus' and 'gibberellin metabolic process', which was in agreement with the production of gibberellin A3 in Dorella plants. RNA-seq profiling was performed for the first time to analyse response of rice to F. fujikuroi infection. Our findings allowed the identification of genes activated in one- and three- week-old rice seedlings of two genotypes infected with F. fujikuroi. Furthermore, we found the pathways involved in bakanae resistance, such as response to chitin, JA-dependent signalling and hypersensitive response. Collectively, this provides important information to elucidate the

  8. Economic factors for the next generation NPPs

    International Nuclear Information System (INIS)

    Bengt, I.; Matzie, R.A.

    1996-01-01

    This paper has summarized the major economic factors that will impact the economic viability of the next generation of nuclear power plants. To make these plants competitive with other sources of electric power, they must have a large plant output (1000 - 1400 M We), be constructed over a short time period (on the order of four years or less), be standardized designs which are pre-licensed, and achieve high availability through the use of long operating cycles and short refueling outages. Many features in the design of these plants can promote these attributes. This is the task of the designer in concert with the plant constructor and equipment supplier to work in a concurrent manner to obtain an integrated design that achieves these goals. It is important from the beginning that all interested parties recognize that there must be a balance between the desire for improved safety and the cost to achieve this safety. Similarly, there must be a recognition that the economics of nuclear power plants are based on power generation costs over a sixty year period, not on the initial capital cost of the plant. The initial capital cost of the plant is only about one-third of the total cost of running the plant for its life time. Thus, focusing on the initial capital costs may drive the designers to incorporate features that adversely affect its future operation. Features such as compact plant designs that have restricted access to components, and the use of highly interconnected systems that perform multiple functions, result in increased difficulty of operating and maintaining the plant. Exhaustive planning in all phases of the plant life cycle will reap dramatic dividends in the reduction of power generation costs. The planning done in the design phase by utilizing designers, constructors, and operators will result in a plant that has lower power generation costs. Planning during the construction phase can result in a shorter schedule, by eliminating essentially all rework

  9. Raytheon's next generation compact inline cryocooler architecture

    International Nuclear Information System (INIS)

    Schaefer, B. R.; Bellis, L.; Ellis, M. J.; Conrad, T.

    2014-01-01

    Since the 1970s, Raytheon has developed, built, tested and integrated high performance cryocoolers. Our versatile designs for single and multi-stage cryocoolers provide reliable operation for temperatures from 10 to 200 Kelvin with power levels ranging from 50 W to nearly 600 W. These advanced cryocoolers incorporate clearance seals, flexure suspensions, hermetic housings and dynamic balancing to provide long service life and reliable operation in all relevant environments. Today, sensors face a multitude of cryocooler integration challenges such as exported disturbance, efficiency, scalability, maturity, and cost. As a result, cryocooler selection is application dependent, oftentimes requiring extensive trade studies to determine the most suitable architecture. To optimally meet the needs of next generation passive IR sensors, the Compact Inline Raytheon Stirling 1-Stage (CI-RS1), Compact Inline Raytheon Single Stage Pulse Tube (CI-RP1) and Compact Inline Raytheon Hybrid Stirling/Pulse Tube 2-Stage (CI-RSP2) cryocoolers are being developed to satisfy this suite of requirements. This lightweight, compact, efficient, low vibration cryocooler combines proven 1-stage (RS1 or RP1) and 2-stage (RSP2) cold-head architectures with an inventive set of warm-end mechanisms into a single cooler module, allowing the moving mechanisms for the compressor and the Stirling displacer to be consolidated onto a common axis and in a common working volume. The CI cryocooler is a significant departure from the current Stirling cryocoolers in which the compressor mechanisms are remote from the Stirling displacer mechanism. Placing all of the mechanisms in a single volume and on a single axis provides benefits in terms of package size (30% reduction), mass (30% reduction), thermodynamic efficiency (>20% improvement) and exported vibration performance (≤25 mN peak in all three orthogonal axes at frequencies from 1 to 500 Hz). The main benefit of axial symmetry is that proven balancing

  10. Next-generation mid-infrared sources

    Science.gov (United States)

    Jung, D.; Bank, S.; Lee, M. L.; Wasserman, D.

    2017-12-01

    to provide a survey of the current state of the art for mid-IR sources, but instead looks primarily to provide a picture of potential next-generation optical and optoelectronic materials systems for mid-IR light generation.

  11. Raytheon's next generation compact inline cryocooler architecture

    Science.gov (United States)

    Schaefer, B. R.; Bellis, L.; Ellis, M. J.; Conrad, T.

    2014-01-01

    Since the 1970s, Raytheon has developed, built, tested and integrated high performance cryocoolers. Our versatile designs for single and multi-stage cryocoolers provide reliable operation for temperatures from 10 to 200 Kelvin with power levels ranging from 50 W to nearly 600 W. These advanced cryocoolers incorporate clearance seals, flexure suspensions, hermetic housings and dynamic balancing to provide long service life and reliable operation in all relevant environments. Today, sensors face a multitude of cryocooler integration challenges such as exported disturbance, efficiency, scalability, maturity, and cost. As a result, cryocooler selection is application dependent, oftentimes requiring extensive trade studies to determine the most suitable architecture. To optimally meet the needs of next generation passive IR sensors, the Compact Inline Raytheon Stirling 1-Stage (CI-RS1), Compact Inline Raytheon Single Stage Pulse Tube (CI-RP1) and Compact Inline Raytheon Hybrid Stirling/Pulse Tube 2-Stage (CI-RSP2) cryocoolers are being developed to satisfy this suite of requirements. This lightweight, compact, efficient, low vibration cryocooler combines proven 1-stage (RS1 or RP1) and 2-stage (RSP2) cold-head architectures with an inventive set of warm-end mechanisms into a single cooler module, allowing the moving mechanisms for the compressor and the Stirling displacer to be consolidated onto a common axis and in a common working volume. The CI cryocooler is a significant departure from the current Stirling cryocoolers in which the compressor mechanisms are remote from the Stirling displacer mechanism. Placing all of the mechanisms in a single volume and on a single axis provides benefits in terms of package size (30% reduction), mass (30% reduction), thermodynamic efficiency (>20% improvement) and exported vibration performance (≤25 mN peak in all three orthogonal axes at frequencies from 1 to 500 Hz). The main benefit of axial symmetry is that proven balancing

  12. Next-Generation Multifunctional Electrochromic Devices.

    Science.gov (United States)

    Cai, Guofa; Wang, Jiangxin; Lee, Pooi See

    2016-08-16

    during the daytime. Energy can also be stored in the smart windows during the daytime simultaneously and be discharged for use in the evening. These results reveal that the electrochromic devices have potential applications in a wide range of areas. We hope that this Account will promote further efforts toward fundamental research on electrochromic materials and the development of new multifunctional electrochromic devices to meet the growing demands for next-generation electronic systems.

  13. Field transcriptome revealed critical developmental and physiological transitions involved in the expression of growth potential in japonica rice

    Directory of Open Access Journals (Sweden)

    Kamatsuki Kaori

    2011-01-01

    Full Text Available Abstract Background Plant growth depends on synergistic interactions between internal and external signals, and yield potential of crops is a manifestation of how these complex factors interact, particularly at critical stages of development. As an initial step towards developing a systems-level understanding of the biological processes underlying the expression of overall agronomic potential in cereal crops, a high-resolution transcriptome analysis of rice was conducted throughout life cycle of rice grown under natural field conditions. Results A wide range of gene expression profiles based on 48 organs and tissues at various developmental stages identified 731 organ/tissue specific genes as well as 215 growth stage-specific expressed genes universally in leaf blade, leaf sheath, and root. Continuous transcriptome profiling of leaf from transplanting until harvesting further elucidated the growth-stage specificity of gene expression and uncovered two major drastic changes in the leaf transcriptional program. The first major change occurred before the panicle differentiation, accompanied by the expression of RFT1, a putative florigen gene in long day conditions, and the downregulation of the precursors of two microRNAs. This transcriptome change was also associated with physiological alterations including phosphate-homeostasis state as evident from the behavior of several key regulators such as miR399. The second major transcriptome change occurred just after flowering, and based on analysis of sterile mutant lines, we further revealed that the formation of strong sink, i.e., a developing grain, is not the major cause but is rather a promoter of this change. Conclusions Our study provides not only the genetic basis for functional genomics in rice but also new insight into understanding the critical physiological processes involved in flowering and seed development, that could lead to novel strategies for optimizing crop productivity.

  14. Educating the Next Generation of Lunar Scientists

    Science.gov (United States)

    Shaner, A. J.; Shipp, S. S.; Allen, J. S.; Kring, D. A.

    2010-12-01

    The Center for Lunar Science and Exploration (CLSE), a collaboration between the Lunar and Planetary Institute (LPI) and NASA’s Johnson Space Center (JSC), is one of seven member teams of the NASA Lunar Science Institute (NLSI). In addition to research and exploration activities, the CLSE team is deeply invested in education and outreach. In support of NASA’s and NLSI’s objective to train the next generation of scientists, CLSE’s High School Lunar Research Project is a conduit through which high school students can actively participate in lunar science and learn about pathways into scientific careers. The High School Lunar Research Project engages teams of high school students in authentic lunar research that envelopes them in the process of science and supports the science goals of the CLSE. Most high school students’ lack of scientific research experience leaves them without an understanding of science as a process. Because of this, each team is paired with a lunar scientist mentor responsible for guiding students through the process of conducting a scientific investigation. Before beginning their research, students undertake “Moon 101,” designed to familiarize them with lunar geology and exploration. Students read articles covering various lunar geology topics and analyze images from past and current lunar missions to become familiar with available lunar data sets. At the end of “Moon 101”, students present a characterization of the geology and chronology of features surrounding the Apollo 11 landing site. To begin their research, teams choose a research subject from a pool of topics compiled by the CLSE staff. After choosing a topic, student teams ask their own research questions, within the context of the larger question, and design their own research approach to direct their investigation. At the conclusion of their research, teams present their results and, after receiving feedback, create and present a conference style poster to a panel of

  15. Next Generation Flight Displays Using HTML5

    Science.gov (United States)

    Greenwood, Brian

    2016-01-01

    The Human Integrated Vehicles and Environments (HIVE) lab at Johnson Space Center (JSC) is focused on bringing together inter-disciplinary talent to design and integrate innovative human interface technologies for next generation manned spacecraft. As part of this objective, my summer internship project centered on an ongoing investigation in to building flight displays using the HTML5 standard. Specifically, the goals of my project were to build and demo "flight-like" crew and wearable displays as well as create a webserver for live systems being developed by the Advanced Exploration Systems (AES) program. In parallel to my project, a LabVIEW application, called a display server, was created by the HIVE that uses an XTCE (XML (Extensible Markup Language) Telemetry and Command Exchange) parser and CCSDS (Consultative Committee for Space Data System) space packet decoder to translate telemetry items sent by the CFS (Core Flight Software) over User Datagram Protocol (UDP). It was the webserver's job to receive these UDP messages and send them to the displays. To accomplish this functionality, I utilized Node.js and the accompanying Express framework. On the display side, I was responsible for creating the power system (AMPS) displays. I did this by using HTML5, CSS and JavaScript to create web pages that could update and change dynamically based on the data they received from the webserver. At this point, I have not started on the commanding, being able to send back to the CFS, portion of the displays but hope to have this functionality working by the completion of my internship. I also created a way to test the webserver's functionality without the display server by making a JavaScript application that read in a comma-separate values (CSV) file and converted it to XML which was then sent over UDP. One of the major requirements of my project was to build everything using as little preexisting code as possible, which I accomplished by only using a handful of Java

  16. Next Generation X-ray Polarimeter

    Science.gov (United States)

    Hill-Kittle, Joe

    The emission regions of many types of X-ray sources are small and cannot be spatially resolved without interferometry techniques that haven't yet been developed. In order to understand the emission mechanisms and emission geometry, alternate measurement techniques are required. Most microphysical processes that affect X-rays, including scattering and magnetic emission processes are imprinted as polarization signatures. X-ray polarization also reveals exotic physical processes occurring in regions of very strong gravitational and magnetic fields. Observations of X-ray polarization will provide a measurement of the geometrical distribution of gas and magnetic fields without foreground depolarization that affects longer wavelengths (e.g. Faraday rotation in the radio). Emission from accretion disks has an inclination-dependent polarization. The polarization signature is modified by extreme gravitational forces, which bend light, essentially changing the contribution of each part of the disk to the integrated total intensity seen by distant observers. Because gravity has the largest effect on the innermost parts of the disk (which are the hottest, and thus contributes to more high energy photons), the energy dependent polarization is diagnostic of disk inclination, black hole mass and spin. Increasing the sensitive energy band will make these measurements possible. X-ray polarimetry will also enable the study of the origin of cosmic rays in the universe, the nature of black holes, the role of black holes in the evolution of galaxies, and the interaction of matter with the highest physically possible magnetic fields. These objectives address NASA's strategic interest in the origin, structure, and evolution of the universe. We propose a two-year effort to develop the Next Generation X-ray Polarimeter (NGXP) that will have more than ten times the sensitivity of the current state of the art. NGXP will make possible game changing measurements of classes of astrophysical

  17. Next-generation probabilistic seismicity forecasting

    Energy Technology Data Exchange (ETDEWEB)

    Hiemer, S.

    2014-07-01

    novel automated method to investigate the significance of spatial b-value variations. The method incorporates an objective data-driven partitioning scheme, which is based on penalized likelihood estimates. These well-defined criteria avoid the difficult choice of commonly applied spatial mapping parameters, such as grid spacing or size of mapping radii. We construct a seismicity forecast that includes spatial b-value variations and demonstrate our model’s skill and reliability when applied to data from California. All proposed probabilistic seismicity forecasts were subjected to evaluation methods using state of the art algorithms provided by the 'Collaboratory for the Study of Earthquake Predictability' infrastructure. First, we evaluated the statistical agreement between the forecasted and observed rates of target events in terms of number, space and magnitude. Secondly, we assessed the performance of one forecast relative to another. We find that the forecasts presented in this thesis are reliable and show significant skills with respect to established classical forecasts. These next-generation probabilistic seismicity forecasts can thus provide hazard information that are potentially useful in reducing earthquake losses and enhancing community preparedness and resilience. (author)

  18. EIDA Next Generation: ongoing and future developments

    Science.gov (United States)

    Strollo, Angelo; Quinteros, Javier; Sleeman, Reinoud; Trani, Luca; Clinton, John; Stammler, Klaus; Danecek, Peter; Pedersen, Helle; Ionescu, Constantin

    2015-04-01

    The European Integrated Data Archive (EIDA; http://www.orfeus-eu.org/eida/eida.html) is the distributed Data Centre system within ORFEUS, providing transparent access and services to high quality, seismic data across (currently) 9 large data archives in Europe. EIDA is growing, in terms of the number of participating data centres, the size of the archives, the variability of the data in the archives, the number of users, and the volume of downloads. The on-going success of EIDA is thus providing challenges that are the driving force behind the design of the next generation (NG) of EIDA, which is expected to be implemented within EPOS IP. EIDA ORFEUS must cope with further expansion of the system and more complex user requirements by developing new techniques and extended services. The EIDA NG is being designed to work on standard FDSN web services and two additional new web services: Routing Service and QC (quality controlled) service. This presentation highlights the challenges EIDA needs to address during the EPOS IP and focuses on these 2 new services. The Routing Service can be considered as the core of EIDA NG. It was designed to assist users and clients to locate data within a federated, decentralized data centre (e.g. EIDA). A detailed, FDSN-compliant specification of the service has been developed. Our implementation of this service will run at every EIDA node, but is also capable of running on a user's computer, allowing anyone to define virtual or integrate existing data centres. This (meta)service needs to be queried in order to locate the data. Some smart clients (in a beta status) have been also provided to offer the user an integrated view of the whole EIDA, hiding the complexity of its internal structure. The service is open and able to be queried by anyone without the need of credentials or authentication. The QC Service is developed to cope with user requirements to query for relevant data only. The web service provides detailed information on the

  19. The Next Generation Airborne Polarimetric Doppler Radar

    Science.gov (United States)

    Vivekanandan, J.; Lee, Wen-Chau; Loew, Eric; Salazar, Jorge; Chandrasekar, V.

    2013-04-01

    NCAR's Electra Doppler radar (ELDORA) with a dual-beam slotted waveguide array using dual-transmitter, dual-beam, rapid scan and step-chirped waveform significantly improved the spatial scale to 300m (Hildebrand et al. 1996). However, ELDORA X-band radar's penetration into precipitation is limited by attenuation and is not designed to collect polarimetric measurements to remotely estimate microphysics. ELDORA has been placed on dormancy because its airborne platform (P3 587) was retired in January 2013. The US research community has strongly voiced the need to continue measurement capability similar to the ELDORA. A critical weather research area is quantitative precipitation estimation/forecasting (QPE/QPF). In recent years, hurricane intensity change involving eye-eyewall interactions has drawn research attention (Montgomery et al., 2006; Bell and Montgomery, 2006). In the case of convective precipitation, two issues, namely, (1) when and where convection will be initiated, and (2) determining the organization and structure of ensuing convection, are key for QPF. Therefore collocated measurements of 3-D winds and precipitation microphysics are required for achieving significant skills in QPF and QPE. Multiple radars in dual-Doppler configuration with polarization capability estimate dynamical and microphysical characteristics of clouds and precipitation are mostly available over land. However, storms over complex terrain, the ocean and in forest regions are not observable by ground-based radars (Bluestein and Wakimoto, 2003). NCAR/EOL is investigating potential configurations for the next generation airborne radar that is capable of retrieving dynamic and microphysical characteristics of clouds and precipitation. ELDORA's slotted waveguide array radar is not compatible for dual-polarization measurements. Therefore, the new design has to address both dual-polarization capability and platform requirements to replace the ELDORA system. NCAR maintains a C-130

  20. Next-generation probabilistic seismicity forecasting

    International Nuclear Information System (INIS)

    Hiemer, S.

    2014-01-01

    novel automated method to investigate the significance of spatial b-value variations. The method incorporates an objective data-driven partitioning scheme, which is based on penalized likelihood estimates. These well-defined criteria avoid the difficult choice of commonly applied spatial mapping parameters, such as grid spacing or size of mapping radii. We construct a seismicity forecast that includes spatial b-value variations and demonstrate our model’s skill and reliability when applied to data from California. All proposed probabilistic seismicity forecasts were subjected to evaluation methods using state of the art algorithms provided by the 'Collaboratory for the Study of Earthquake Predictability' infrastructure. First, we evaluated the statistical agreement between the forecasted and observed rates of target events in terms of number, space and magnitude. Secondly, we assessed the performance of one forecast relative to another. We find that the forecasts presented in this thesis are reliable and show significant skills with respect to established classical forecasts. These next-generation probabilistic seismicity forecasts can thus provide hazard information that are potentially useful in reducing earthquake losses and enhancing community preparedness and resilience. (author)

  1. Analyses of advanced rice anther transcriptomes reveal global tapetum secretory functions and potential proteins for lipid exine formation.

    Science.gov (United States)

    Huang, Ming-Der; Wei, Fu-Jin; Wu, Cheng-Cheih; Hsing, Yue-Ie Caroline; Huang, Anthony H C

    2009-02-01

    The anthers in flowers perform important functions in sexual reproduction. Several recent studies used microarrays to study anther transcriptomes to explore genes controlling anther development. To analyze the secretion and other functions of the tapetum, we produced transcriptomes of anthers of rice (Oryza sativa subsp. japonica) at six progressive developmental stages and pollen with sequencing-by-synthesis technology. The transcriptomes included at least 18,000 unique transcripts, about 25% of which had antisense transcripts. In silico anther-minus-pollen subtraction produced transcripts largely unique to the tapetum; these transcripts include all the reported tapetum-specific transcripts of orthologs in other species. The differential developmental profiles of the transcripts and their antisense transcripts signify extensive regulation of gene expression in the anther, especially the tapetum, during development. The transcriptomes were used to dissect two major cell/biochemical functions of the tapetum. First, we categorized and charted the developmental profiles of all transcripts encoding secretory proteins present in the cellular exterior; these transcripts represent about 12% and 30% of the those transcripts having more than 100 and 1,000 transcripts per million, respectively. Second, we successfully selected from hundreds of transcripts several transcripts encoding potential proteins for lipid exine synthesis during early anther development. These proteins include cytochrome P450, acyltransferases, and lipid transfer proteins in our hypothesized mechanism of exine synthesis in and export from the tapetum. Putative functioning of these proteins in exine formation is consistent with proteins and metabolites detected in the anther locule fluid obtained by micropipetting.

  2. Building next-generation converged networks theory and practice

    CERN Document Server

    Pathan, Al-Sakib Khan

    2013-01-01

    Supplying a comprehensive introduction to next-generation networks, Building Next-Generation Converged Networks: Theory and Practice strikes a balance between how and why things work and how to make them work. It compiles recent advancements along with basic issues from the wide range of fields related to next generation networks. Containing the contributions of 56 industry experts and researchers from 16 different countries, the book presents relevant theoretical frameworks and the latest research. It investigates new technologies such as IPv6 over Low Power Wireless Personal Area Network (6L

  3. Transcriptome analysis highlights defense and signaling pathways mediated by rice pi21 gene with partial resistance to Magnaporthe oryzae

    Directory of Open Access Journals (Sweden)

    Yu Zhang

    2016-12-01

    Full Text Available Rice blast disease is one of the most destructive rice diseases worldwide. The pi21 gene confers partial and durable resistance to Magnaporthe oryzae. However, little is known regarding the molecular mechanisms of resistance mediated by the loss-of-function of Pi21. In this study, comparative transcriptome profiling of the Pi21-RNAi transgenic rice line and Nipponbare with M. oryzae infection at different time points (0, 12, 24, 48, and 72 hpi were investigated using RNA sequencing. The results generated 43,222 unique genes mapped to the rice genome. In total, 1,109 differentially expressed genes (DEGs were identified between the Pi21-RNAi line and Nipponbare with M. oryzae infection, with 103, 281, 209, 69, and 678 DEGs at 0, 12, 24, 48, and 72 hpi, respectively. Functional analysis showed that most of the DEGs were involved in metabolism, transport, signaling, and defense. Among the genes assigned to plant–pathogen interaction, we identified 43 receptor kinase genes associated with pathogen-associated molecular pattern recognition and calcium ion influx. The expression levels of brassinolide-insensitive 1, flagellin sensitive 2 and elongation factor Tu receptor, ethylene (ET biosynthesis and signaling genes, were higher in the Pi21-RNAi line than Nipponbare. This suggested that there was a more robust PTI response in Pi21-RNAi plants and that ET signaling was important to rice blast resistance. We also identified 53 transcription factor genes, including WRKY, NAC, DOF, and ERF families that show differential expression between the two genotypes. This study highlights possible candidate genes that may serve a function in the partial rice blast resistance mediated by the loss-of-function of Pi21 and increase our understanding of the molecular mechanisms involved in partial resistance against M. oryzae.

  4. Comparative Transcriptome Analysis of Salivary Glands of Two Populations of Rice Brown Planthopper, Nilaparvata lugens, That Differ in Virulence

    Science.gov (United States)

    Chen, Hongdan; Ye, Wenfeng; Li, Shaohui; Lou, Yonggen

    2013-01-01

    Background The brown planthopper (BPH), Nilaparvata lugens (Stål), a destructive rice pest in Asia, can quickly overcome rice resistance by evolving new virulent populations. Herbivore saliva plays an important role in plant–herbivore interactions, including in plant defense and herbivore virulence. However, thus far little is known about BPH saliva at the molecular level, especially its role in virulence and BPH–rice interaction. Methodology/Principal Findings Using cDNA amplification in combination with Illumina short-read sequencing technology, we sequenced the salivary-gland transcriptomes of two BPH populations with different virulence; the populations were derived from rice variety TN1 (TN1 population) and Mudgo (M population). In total, 37,666 and 38,451 unigenes were generated from the salivary glands of these populations, respectively. When combined, a total of 43,312 unigenes were obtained, about 18 times more than the number of expressed sequence tags previously identified from these glands. Gene ontology annotations and KEGG orthology classifications indicated that genes related to metabolism, binding and transport were significantly active in the salivary glands. A total of 352 genes were predicted to encode secretory proteins, and some might play important roles in BPH feeding and BPH–rice interactions. Comparative analysis of the transcriptomes of the two populations revealed that the genes related to ‘metabolism,’ ‘digestion and absorption,’ and ‘salivary secretion’ might be associated with virulence. Moreover, 67 genes encoding putative secreted proteins were differentially expressed between the two populations, suggesting these genes may contribute to the change in virulence. Conclusions/Significance This study was the first to compare the salivary-gland transcriptomes of two BPH populations having different virulence traits and to find genes that may be related to this difference. Our data provide a rich molecular resource for

  5. Comparative Analysis of Anther Transcriptome Profiles of Two Different Rice Male Sterile Lines Genotypes under Cold Stress

    Directory of Open Access Journals (Sweden)

    Bin Bai

    2015-05-01

    Full Text Available Rice is highly sensitive to cold stress during reproductive developmental stages, and little is known about the mechanisms of cold responses in rice anther. Using the HiSeq™ 2000 sequencing platform, the anther transcriptome of photo thermo sensitive genic male sterile lines (PTGMS rice Y58S and P64S (Pei’ai64S were analyzed at the fertility sensitive stage under cold stress. Approximately 243 million clean reads were obtained from four libraries and aligned against the oryza indica genome and 1497 and 5652 differentially expressed genes (DEGs were identified in P64S and Y58S, respectively. Both gene ontology (GO and Kyoto Encyclopedia of Genes and Genomes (KEGG analyses were conducted for these DEGs. Functional classification of DEGs was also carried out. The DEGs common to both genotypes were mainly involved in signal transduction, metabolism, transport, and transcriptional regulation. Most of the DEGs were unique for each comparison group. We observed that there were more differentially expressed MYB (Myeloblastosis and zinc finger family transcription factors and signal transduction components such as calmodulin/calcium dependent protein kinases in the Y58S comparison group. It was also found that ribosome-related DEGs may play key roles in cold stress signal transduction. These results presented here would be particularly useful for further studies on investigating the molecular mechanisms of rice responses to cold stress.

  6. Pharmacokinetic and pharmacodynamic considerations for the next generation protein therapeutics.

    Science.gov (United States)

    Shah, Dhaval K

    2015-10-01

    Increasingly sophisticated protein engineering efforts have been undertaken lately to generate protein therapeutics with desired properties. This has resulted in the discovery of the next generation of protein therapeutics, which include: engineered antibodies, immunoconjugates, bi/multi-specific proteins, antibody mimetic novel scaffolds, and engineered ligands/receptors. These novel protein therapeutics possess unique physicochemical properties and act via a unique mechanism-of-action, which collectively makes their pharmacokinetics (PK) and pharmacodynamics (PD) different than other established biological molecules. Consequently, in order to support the discovery and development of these next generation molecules, it becomes important to understand the determinants controlling their PK/PD. This review discusses the determinants that a PK/PD scientist should consider during the design and development of next generation protein therapeutics. In addition, the role of systems PK/PD models in enabling rational development of the next generation protein therapeutics is emphasized.

  7. NOAA Next Generation Radar (NEXRAD) Level 2 Base Data

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This dataset consists of Level II weather radar data collected from Next-Generation Radar (NEXRAD) stations located in the contiguous United States, Alaska, Hawaii,...

  8. RIPng- A next Generation Routing Protocal (IPv6) | Falaye | Journal ...

    African Journals Online (AJOL)

    ... Information Protocol Next Generation (RIPng) owing to the current depletion rate of IPv4. ... that support the Internet Protocol Version 6 (IPv6).addressing scheme. ... A brief history is given; its various versions are discussed, and detailed ...

  9. 75 FR 82387 - Next Generation Risk Assessment Public Dialogue Conference

    Science.gov (United States)

    2010-12-30

    ... ENVIRONMENTAL PROTECTION AGENCY [FRL-9246-7] Next Generation Risk Assessment Public Dialogue Conference AGENCY: Environmental Protection Agency (EPA). ACTION: Notice of Public Dialogue Conference... methods with the National Institutes of Environmental Health Sciences' National Toxicology Program, Center...

  10. NOAA Next Generation Radar (NEXRAD) Level 3 Products

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This dataset consists of Level 3 weather radar products collected from Next-Generation Radar (NEXRAD) stations located in the contiguous United States, Alaska,...

  11. Next Generation Life Support (NGLS): Rapid Cycle Amine Swing Bed

    Data.gov (United States)

    National Aeronautics and Space Administration — The Rapid Cycle Amine (RCA) swingbed has been identified as a technology with high potential to meet the stringent requirements for the next generation spacesuit's...

  12. New materials for next-generation commercial transports

    National Research Council Canada - National Science Library

    Committee on New Materials for Advanced Civil Aircraft, Commission on Engineering and Technical Systems, National Research Council

    ... civil aircraft throughout their service life. The committee investigated the new materials and structural concepts that are likely to be incorporated into next generation commercial aircraft and the factors influencing application decisions...

  13. Novel nanostructures for next generation dye-sensitized solar cells

    KAUST Repository

    Té treault, Nicolas; Grä tzel, Michael

    2012-01-01

    Herein, we review our latest advancements in nanostructured photoanodes for next generation photovoltaics in general and dye-sensitized solar cells in particular. Bottom-up self-assembly techniques are developed to fabricate large-area 3D

  14. Transcriptome markers of viral persistence in naturally-infected andes virus (bunyaviridae seropositive long-tailed pygmy rice rats.

    Directory of Open Access Journals (Sweden)

    Corey L Campbell

    Full Text Available Long-tailed pygmy rice rats (Oligoryzomys longicaudatus are principal reservoir hosts of Andes virus (ANDV (Bunyaviridae, which causes most hantavirus cardiopulmonary syndrome cases in the Americas. To develop tools for the study of the ANDV-host interactions, we used RNA-Seq to generate a de novo transcriptome assembly. Splenic RNA from five rice rats captured in Chile, three of which were ANDV-infected, was used to generate an assembly of 66,173 annotated transcripts, including noncoding RNAs. Phylogenetic analysis of selected predicted proteins showed similarities to those of the North American deer mouse (Peromyscus maniculatus, the principal reservoir of Sin Nombre virus (SNV. One of the infected rice rats had about 50-fold more viral burden than the others, suggesting acute infection, whereas the remaining two had levels consistent with persistence. Differential expression analysis revealed distinct signatures among the infected rodents. The differences could be due to 1 variations in viral load, 2 dimorphic or reproductive differences in splenic homing of immune cells, or 3 factors of unknown etiology. In the two persistently infected rice rats, suppression of the JAK-STAT pathway at Stat5b and Ccnot1, elevation of Casp1, RIG-I pathway factors Ppp1cc and Mff, and increased FC receptor-like transcripts occurred. Caspase-1 and Stat5b activation pathways have been shown to stimulate T helper follicular cell (TFH development in other species. These data are also consistent with reports suggestive of TFH stimulation in deer mice experimentally infected with hantaviruses. In the remaining acutely infected rice rat, the apoptotic pathway marker Cox6a1 was elevated, and putative anti-viral factors Abcb1a, Fam46c, Spp1, Rxra, Rxrb, Trmp2 and Trim58 were modulated. Transcripts for preproenkephalin (Prenk were reduced, which may be predictive of an increased T cell activation threshold. Taken together, this transcriptome dataset will permit rigorous

  15. Examination of concept of next generation computer. Progress report 1999

    Energy Technology Data Exchange (ETDEWEB)

    Higuchi, Kenji; Hasegawa, Yukihiro; Hirayama, Toshio

    2000-12-01

    The Center for Promotion of Computational Science and Engineering has conducted R and D works on the technology of parallel processing and has started the examination of the next generation computer in 1999. This report describes the behavior analyses of quantum calculation codes. It also describes the consideration for the analyses and examination results for the method to reduce cash misses. Furthermore, it describes a performance simulator that is being developed to quantitatively examine the concept of the next generation computer. (author)

  16. Next-generation wireless technologies 4G and beyond

    CERN Document Server

    Chilamkurti, Naveen; Chaouchi, Hakima

    2013-01-01

    This comprehensive text/reference examines the various challenges to secure, efficient and cost-effective next-generation wireless networking. Topics and features: presents the latest advances, standards and technical challenges in a broad range of emerging wireless technologies; discusses cooperative and mesh networks, delay tolerant networks, and other next-generation networks such as LTE; examines real-world applications of vehicular communications, broadband wireless technologies, RFID technology, and energy-efficient wireless communications; introduces developments towards the 'Internet o

  17. Combining next-generation sequencing and online databases for microsatellite development in non-model organisms.

    Science.gov (United States)

    Rico, Ciro; Normandeau, Eric; Dion-Côté, Anne-Marie; Rico, María Inés; Côté, Guillaume; Bernatchez, Louis

    2013-12-03

    Next-generation sequencing (NGS) is revolutionising marker development and the rapidly increasing amount of transcriptomes published across a wide variety of taxa is providing valuable sequence databases for the identification of genetic markers without the need to generate new sequences. Microsatellites are still the most important source of polymorphic markers in ecology and evolution. Motivated by our long-term interest in the adaptive radiation of a non-model species complex of whitefishes (Coregonus spp.), in this study, we focus on microsatellite characterisation and multiplex optimisation using transcriptome sequences generated by Illumina® and Roche-454, as well as online databases of Expressed Sequence Tags (EST) for the study of whitefish evolution and demographic history. We identified and optimised 40 polymorphic loci in multiplex PCR reactions and validated the robustness of our analyses by testing several population genetics and phylogeographic predictions using 494 fish from five lakes and 2 distinct ecotypes.

  18. Mining and Development of Novel SSR Markers Using Next Generation Sequencing (NGS Data in Plants

    Directory of Open Access Journals (Sweden)

    Sima Taheri

    2018-02-01

    Full Text Available Microsatellites, or simple sequence repeats (SSRs, are one of the most informative and multi-purpose genetic markers exploited in plant functional genomics. However, the discovery of SSRs and development using traditional methods are laborious, time-consuming, and costly. Recently, the availability of high-throughput sequencing technologies has enabled researchers to identify a substantial number of microsatellites at less cost and effort than traditional approaches. Illumina is a noteworthy transcriptome sequencing technology that is currently used in SSR marker development. Although 454 pyrosequencing datasets can be used for SSR development, this type of sequencing is no longer supported. This review aims to present an overview of the next generation sequencing, with a focus on the efficient use of de novo transcriptome sequencing (RNA-Seq and related tools for mining and development of microsatellites in plants.

  19. Next-Generation Genomics Facility at C-CAMP: Accelerating Genomic Research in India

    Science.gov (United States)

    S, Chandana; Russiachand, Heikham; H, Pradeep; S, Shilpa; M, Ashwini; S, Sahana; B, Jayanth; Atla, Goutham; Jain, Smita; Arunkumar, Nandini; Gowda, Malali

    2014-01-01

    Next-Generation Sequencing (NGS; http://www.genome.gov/12513162) is a recent life-sciences technological revolution that allows scientists to decode genomes or transcriptomes at a much faster rate with a lower cost. Genomic-based studies are in a relatively slow pace in India due to the non-availability of genomics experts, trained personnel and dedicated service providers. Using NGS there is a lot of potential to study India's national diversity (of all kinds). We at the Centre for Cellular and Molecular Platforms (C-CAMP) have launched the Next Generation Genomics Facility (NGGF) to provide genomics service to scientists, to train researchers and also work on national and international genomic projects. We have HiSeq1000 from Illumina and GS-FLX Plus from Roche454. The long reads from GS FLX Plus, and high sequence depth from HiSeq1000, are the best and ideal hybrid approaches for de novo and re-sequencing of genomes and transcriptomes. At our facility, we have sequenced around 70 different organisms comprising of more than 388 genomes and 615 transcriptomes – prokaryotes and eukaryotes (fungi, plants and animals). In addition we have optimized other unique applications such as small RNA (miRNA, siRNA etc), long Mate-pair sequencing (2 to 20 Kb), Coding sequences (Exome), Methylome (ChIP-Seq), Restriction Mapping (RAD-Seq), Human Leukocyte Antigen (HLA) typing, mixed genomes (metagenomes) and target amplicons, etc. Translating DNA sequence data from NGS sequencer into meaningful information is an important exercise. Under NGGF, we have bioinformatics experts and high-end computing resources to dissect NGS data such as genome assembly and annotation, gene expression, target enrichment, variant calling (SSR or SNP), comparative analysis etc. Our services (sequencing and bioinformatics) have been utilized by more than 45 organizations (academia and industry) both within India and outside, resulting several publications in peer-reviewed journals and several genomic/transcriptomic

  20. Transcriptome and Cell Physiological Analyses in Different Rice Cultivars Provide New Insights Into Adaptive and Salinity Stress Responses

    Directory of Open Access Journals (Sweden)

    Elide Formentin

    2018-03-01

    Full Text Available Salinity tolerance has been extensively investigated in recent years due to its agricultural importance. Several features, such as the regulation of ionic transporters and metabolic adjustments, have been identified as salt tolerance hallmarks. Nevertheless, due to the complexity of the trait, the results achieved to date have met with limited success in improving the salt tolerance of rice plants when tested in the field, thus suggesting that a better understanding of the tolerance mechanisms is still required. In this work, differences between two varieties of rice with contrasting salt sensitivities were revealed by the imaging of photosynthetic parameters, ion content analysis and a transcriptomic approach. The transcriptomic analysis conducted on tolerant plants supported the setting up of an adaptive program consisting of sodium distribution preferentially limited to the roots and older leaves, and in the activation of regulatory mechanisms of photosynthesis in the new leaves. As a result, plants resumed grow even under prolonged saline stress. In contrast, in the sensitive variety, RNA-seq analysis revealed a misleading response, ending in senescence and cell death. The physiological response at the cellular level was investigated by measuring the intracellular profile of H2O2 in the roots, using a fluorescent probe. In the roots of tolerant plants, a quick response was observed with an increase in H2O2 production within 5 min after salt treatment. The expression analysis of some of the genes involved in perception, signal transduction and salt stress response confirmed their early induction in the roots of tolerant plants compared to sensitive ones. By inhibiting the synthesis of apoplastic H2O2, a reduction in the expression of these genes was detected. Our results indicate that quick H2O2 signaling in the roots is part of a coordinated response that leads to adaptation instead of senescence in salt-treated rice plants.

  1. Physical Configuration of the Next Generation Home Network

    Science.gov (United States)

    Terada, Shohei; Kakishima, Yu; Hanawa, Dai; Oguchi, Kimio

    The number of broadband users is rapidly increasing worldwide. Japan already has over 10 million FTTH users. Another trend is the rapid digitalization of home electrical equipment e. g. digital cameras and hard disc recorders. These trends will encourage the emergence of the next generation home network. In this paper, we introduce the next generation home network image and describe the five domains into which home devices can be classified. We then clarify the optimum medium with which to configure the network given the requirements imposed by the home environment. Wiring cable lengths for three network topologies are calculated. The results gained from the next generation home network implemented on the first phase testbed are shown. Finally, our conclusions are given.

  2. Key thrusts in next generation CANDU. Annex 10

    International Nuclear Information System (INIS)

    Shalaby, B.A.; Torgerson, D.F.; Duffey, R.B.

    2002-01-01

    Current electricity markets and the competitiveness of other generation options such as CCGT have influenced the directions of future nuclear generation. The next generation CANDU has used its key characteristics as the basis to leap frog into a new design featuring improved economics, enhanced passive safety, enhanced operability and demonstrated fuel cycle flexibility. Many enabling technologies spinning of current CANDU design features are used in the next generation design. Some of these technologies have been developed in support of existing plants and near term designs while others will need to be developed and tested. This paper will discuss the key principles driving the next generation CANDU design and the fuel cycle flexibility of the CANDU system which provide synergism with the PWR fuel cycle. (author)

  3. Next Generation Sequencing of Ancient DNA: Requirements, Strategies and Perspectives

    Directory of Open Access Journals (Sweden)

    Michael Knapp

    2010-07-01

    Full Text Available The invention of next-generation-sequencing has revolutionized almost all fields of genetics, but few have profited from it as much as the field of ancient DNA research. From its beginnings as an interesting but rather marginal discipline, ancient DNA research is now on its way into the centre of evolutionary biology. In less than a year from its invention next-generation-sequencing had increased the amount of DNA sequence data available from extinct organisms by several orders of magnitude. Ancient DNA  research is now not only adding a temporal aspect to evolutionary studies and allowing for the observation of evolution in real time, it also provides important data to help understand the origins of our own species. Here we review progress that has been made in next-generation-sequencing of ancient DNA over the past five years and evaluate sequencing strategies and future directions.

  4. Preparation of next generation set of group cross sections. 3

    International Nuclear Information System (INIS)

    Kaneko, Kunio

    2002-03-01

    This fiscal year, based on the examination result about the evaluation energy range of heavy element unresolved resonance cross sections, the upper energy limit of the energy range, where ultra-fine group cross sections are produced, was raised to 50 keV, and an improvement of the group cross section processing system was promoted. At the same time, reflecting the result of studies carried out till now, a function producing delayed neutron data was added to the general-purpose group cross section processing system , thus the preparation of general purpose group cross section processing system has been completed. On the other hand, the energy structure, data constitution and data contents of next generation group cross section set were determined, and the specification of a 151 groups next generation group cross section set was defined. Based on the above specification, a concrete library format of the next generation cross section set has been determined. After having carried out the above-described work, using the general-purpose group cross section processing system , which was complete in this study, with use of the JENDL-3. 2 evaluated nuclear data, the 151 groups next generation group cross section of 92 nuclides and the ultra fine group resonance cross section library for 29 nuclides have been prepared. Utilizing the 151 groups next generation group cross section set and the ultra-fine group resonance cross-section library, a bench mark test calculation of fast reactors has been performed by using an advanced lattice calculation code. It was confirmed, by comparing the calculation result with a calculation result of continuous energy Monte Carlo code, that the 151 groups next generation cross section set has sufficient accuracy. (author)

  5. THE TRAINING OF NEXT GENERATION DATA SCIENTISTS IN BIOMEDICINE.

    Science.gov (United States)

    Garmire, Lana X; Gliske, Stephen; Nguyen, Quynh C; Chen, Jonathan H; Nemati, Shamim; VAN Horn, John D; Moore, Jason H; Shreffler, Carol; Dunn, Michelle

    2017-01-01

    With the booming of new technologies, biomedical science has transformed into digitalized, data intensive science. Massive amount of data need to be analyzed and interpreted, demand a complete pipeline to train next generation data scientists. To meet this need, the transinstitutional Big Data to Knowledge (BD2K) Initiative has been implemented since 2014, complementing other NIH institutional efforts. In this report, we give an overview the BD2K K01 mentored scientist career awards, which have demonstrated early success. We address the specific trainings needed in representative data science areas, in order to make the next generation of data scientists in biomedicine.

  6. The contribution of next generation sequencing to epilepsy genetics

    DEFF Research Database (Denmark)

    Møller, Rikke S.; Dahl, Hans A.; Helbig, Ingo

    2015-01-01

    During the last decade, next generation sequencing technologies such as targeted gene panels, whole exome sequencing and whole genome sequencing have led to an explosion of gene identifications in monogenic epilepsies including both familial epilepsies and severe epilepsies, often referred to as ...

  7. Next Generation Science Standards: All Standards, All Students

    Science.gov (United States)

    Lee, Okhee; Miller, Emily C.; Januszyk, Rita

    2014-01-01

    The Next Generation Science Standards (NGSS) offer a vision of science teaching and learning that presents both learning opportunities and demands for all students, particularly student groups that have traditionally been underserved in science classrooms. The NGSS have addressed issues of diversity and equity from their inception, and the NGSS…

  8. Addressing Three Common Myths about the Next Generation Science Standards

    Science.gov (United States)

    Huff, Kenneth L.

    2016-01-01

    Although the "Next Generation Science Standards" (NGSS Lead States 2013) were released over two years ago, misconceptions about what they are--and are not--persist. The "NGSS" provide for consistent science education opportunities for all students--regardless of demographics--with a level of rigor expected in every location and…

  9. Answers to Teachers' Questions about the Next Generation Science Standards

    Science.gov (United States)

    Workosky, Cindy; Willard, Ted

    2015-01-01

    K-12 teachers of science have been digging into the "Next Generation Science Standards" ("NGSS") (NGSS Lead States 2013) to begin creating plans and processes for translating them for classroom instruction. As teachers learn about the NGSS, they have asked about the general structure of the standards document and how to read…

  10. The Next Generation Science Standards: The Features and Challenges

    Science.gov (United States)

    Pruitt, Stephen L.

    2014-01-01

    Beginning in January of 2010, the Carnegie Corporation of New York funded a two-step process to develop a new set of state developed science standards intended to prepare students for college and career readiness in science. These new internationally benchmarked science standards, the Next Generation Science Standards (NGSS) were completed in…

  11. The Next Generation Science Standards: A Focus on Physical Science

    Science.gov (United States)

    Krajcik, Joe

    2013-01-01

    This article describes ways to adapt U.S. science curriculum to the U.S. National Research Council (NRC) "Framework for K-12 Science Education" and "Next Generation of Science Standards" (NGSS), noting their focus on teaching the physical sciences. The overall goal of the Framework and NGSS is to help all learners develop the…

  12. Next Generation Science Standards: Adoption and Implementation Workbook

    Science.gov (United States)

    Peltzman, Alissa; Rodriguez, Nick

    2013-01-01

    The Next Generation Science Standards (NGSS) represent the culmination of years of collaboration and effort by states, science educators and experts from across the United States. Based on the National Research Council's "A Framework for K-12 Science Education" and developed in partnership with 26 lead states, the NGSS, when…

  13. Framework for Leading Next Generation Science Standards Implementation

    Science.gov (United States)

    Stiles, Katherine; Mundry, Susan; DiRanna, Kathy

    2017-01-01

    In response to the need to develop leaders to guide the implementation of the Next Generation Science Standards (NGSS), the Carnegie Corporation of New York provided funding to WestEd to develop a framework that defines the leadership knowledge and actions needed to effectively implement the NGSS. The development of the framework entailed…

  14. Prospects for next-generation e+e- linear colliders

    International Nuclear Information System (INIS)

    Ruth, R.D.

    1990-02-01

    The purpose of this paper is to review progress in the US towards a next generation linear collider. During 1988, there were three workshops held on linear colliders: ''Physics of Linear Colliders,'' in Capri, Italy, June 14--18, 1988; Snowmass 88 (Linear Collider subsection) June 27--July 15, 1988; and SLAC International Workshop on Next Generation Linear Colliders, November 28--December 9, 1988. In this paper, I focus on reviewing the issues and progress on a next generation linear collider. The energy range is dictated by physics with a mass reach well beyond LEP, although somewhat short of SSC. The luminosity is that required to obtain 10 3 --10 4 units of R 0 per year. The length is consistent with a site on Stanford land with collision occurring on the SLAC site; the power was determined by economic considerations. Finally, the technology as limited by the desire to have a next generation linear collider by the next century. 37 refs., 3 figs., 6 tabs

  15. HLA typing: Conventional techniques v. next-generation sequencing ...

    African Journals Online (AJOL)

    Background. The large number of population-specific polymorphisms present in the HLA complex in the South African (SA) population reduces the probability of finding an adequate HLA-matched donor for individuals in need of an unrelated haematopoietic stem cell transplantation (HSCT). Next-generation sequencing ...

  16. HLA typing: Conventional techniques v.next-generation sequencing

    African Journals Online (AJOL)

    The existing techniques have contributed significantly to our current knowledge of allelic diversity. At present, sequence-based typing (SBT) methods, in particular next-generation sequencing. (NGS), provide the highest possible resolution. NGS platforms were initially only used for genomic sequencing, but also showed.

  17. Application of Next Generation Sequencing on Genetic Testing

    DEFF Research Database (Denmark)

    Li, Jian

    The discovery of genetic factors behind increasing number of human diseases and the growth of education of genetic knowledge to the public make demands for genetic testing increase rapidly. However, traditional genetic testing methods cannot meet all kinds of the requirements. Next generation seq...

  18. Using Digital Watermarking for Securing Next Generation Media Broadcasts

    Science.gov (United States)

    Birk, Dominik; Gaines, Seán

    The Internet presents a problem for the protection of intellectual property. Those who create content must be adequately compensated for the use of their works. Rights agencies who monitor the use of these works exist in many jurisdictions. In the traditional broadcast environment this monitoring is a difficult task. With Internet Protocol Television (IPTV) and Next Generation Networks (NGN) this situation is further complicated.

  19. Next Generation UV Coronagraph Instrumentation for Solar Cycle-24

    Indian Academy of Sciences (India)

    2016-01-27

    Jan 27, 2016 ... New concepts for next generation instrumentation include imaging ultraviolet spectrocoronagraphs and large aperture ultraviolet coronagraph spectrometers. An imaging instrument would be the first to obtain absolute spectral line intensities of the extended corona over a wide field of view. Such images ...

  20. The NASA Next Generation Stirling Technology Program Overview

    Science.gov (United States)

    Schreiber, J. G.; Shaltens, R. K.; Wong, W. A.

    2005-12-01

    NASAs Science Mission Directorate is developing the next generation Stirling technology for future Radioisotope Power Systems (RPS) for surface and deep space missions. The next generation Stirling convertor is one of two advanced power conversion technologies currently being developed for future NASA missions, and is capable of operating for both planetary atmospheres and deep space environments. The Stirling convertor (free-piston engine integrated with a linear alternator) produces about 90 We(ac) and has a specific power of about 90 We/kg. Operating conditions of Thot at 850 degree C and Trej at 90 degree C results in the Stirling convertor estimated efficiency of about 40 per cent. Using the next generation Stirling convertor in future RPS, the "system" specific power is estimated at 8 We/kg. The design lifetime is three years on the surface of Mars and fourteen years in deep space missions. Electrical power of about 160 We (BOM) is produced by two (2) free-piston Stirling convertors heated by two (2) General Purpose Heat Source (GPHS) modules. This development is being performed by Sunpower, Athens, OH with Pratt & Whitney, Rocketdyne, Canoga Park, CA under contract to Glenn Research Center (GRC), Cleveland, Ohio. GRC is guiding the independent testing and technology development for the next generation Stirling generator.

  1. Modelling of control system architecture for next-generation accelerators

    International Nuclear Information System (INIS)

    Liu, Shi-Yao; Kurokawa, Shin-ichi

    1990-01-01

    Functional, hardware and software system architectures define the fundamental structure of control systems. Modelling is a protocol of system architecture used in system design. This paper reviews various modellings adopted in past ten years and suggests a new modelling for next generation accelerators. (author)

  2. Targeted enrichment strategies for next-generation plant biology

    Science.gov (United States)

    Richard Cronn; Brian J. Knaus; Aaron Liston; Peter J. Maughan; Matthew Parks; John V. Syring; Joshua. Udall

    2012-01-01

    The dramatic advances offered by modem DNA sequencers continue to redefine the limits of what can be accomplished in comparative plant biology. Even with recent achievements, however, plant genomes present obstacles that can make it difficult to execute large-scale population and phylogenetic studies on next-generation sequencing platforms. Factors like large genome...

  3. Preparing the Next Generation of Educators for Democracy

    Science.gov (United States)

    Embry-Jenlink, Karen

    2018-01-01

    In the keynote address of the 42nd annual meeting of the Southeastern Regional Educators Association (SRATE), ATE President Karen Embry-Jenlink examines the critical role of teacher educators in preparing the next generation of citizens and leaders to sustain democracy. Drawing from historic and current events and personal experience,…

  4. The "Next Generation Science Standards" and the Life Sciences

    Science.gov (United States)

    Bybee, Rodger W.

    2013-01-01

    Publication of the "Next Generation Science Standards" will be just short of two decades since publication of the "National Science Education Standards" (NRC 1996). In that time, biology and science education communities have advanced, and the new standards will reflect that progress (NRC 1999, 2007, 2009; Kress and Barrett…

  5. Design Principles of Next-Generation Digital Gaming for Education.

    Science.gov (United States)

    Squire, Kurt; Jenkins, Henry; Holland, Walter; Miller, Heather; O'Driscoll, Alice; Tan, Katie Philip; Todd, Katie.

    2003-01-01

    Discusses the rapid growth of digital games, describes research at MIT that is exploring the potential of digital games for supporting learning, and offers hypotheses about the design of next-generation educational video and computer games. Highlights include simulations and games; and design principles, including context and using information to…

  6. Efficient Cryptography for the Next Generation Secure Cloud

    Science.gov (United States)

    Kupcu, Alptekin

    2010-01-01

    Peer-to-peer (P2P) systems, and client-server type storage and computation outsourcing constitute some of the major applications that the next generation cloud schemes will address. Since these applications are just emerging, it is the perfect time to design them with security and privacy in mind. Furthermore, considering the high-churn…

  7. Impact of ectopic pregnancy for reproductive prognosis in next generation

    DEFF Research Database (Denmark)

    Kårhus, Line Lund; Egerup, Pia; Skovlund, Charlotte Wessel

    2014-01-01

    The impact of an ectopic pregnancy in the next generation is unknown. Our aim was to compare reproductive outcomes in daughters of women with and without ectopic pregnancy. Designed as a historical prospective controlled cohort study with data collected in four Danish registries from 1977-2009, w...

  8. Mobile e-Learning for Next Generation Communication Environment

    Science.gov (United States)

    Wu, Tin-Yu; Chao, Han-Chieh

    2008-01-01

    This article develops an environment for mobile e-learning that includes an interactive course, virtual online labs, an interactive online test, and lab-exercise training platform on the fourth generation mobile communication system. The Next Generation Learning Environment (NeGL) promotes the term "knowledge economy." Inter-networking…

  9. Radio resource management for next generation mobile communication systems

    DEFF Research Database (Denmark)

    Wang, Hua

    The key feature of next generation (4G) mobile communication system is the ability to deliver a variety of multimedia services with different Quality-of-Service (QoS) requirements. Compared to the third generation (3G) mobile communication systems, 4G mobile communication system introduces several...

  10. Next generation multi-material 3D food printer concept

    NARCIS (Netherlands)

    Klomp, D.J.; Anderson, P.D.

    2017-01-01

    3D food printing is a new rapidly developing technology capable of creating food structures that are impossible to create with normal processing techniques. Challenges in this field are creating texture and multi-material food products. To address these challenges a next generation food printer will

  11. Power Electronics for the Next Generation Wind Turbine System

    DEFF Research Database (Denmark)

    Ma, Ke

    This book presents recent studies on the power electronics used for the next generation wind turbine system. Some criteria and tools for evaluating and improving the critical performances of the wind power converters have been proposed and established. The book addresses some emerging problems...

  12. ERP II: Next-generation Extended Enterprise Resource Planning

    DEFF Research Database (Denmark)

    Møller, Charles

    2004-01-01

    ERP II (ERP/2) systems is a new concept introduced by Gartner Group in 2000 in order to label the latest extensions of the ERP-systems. The purpose of this paper is to explore the next-generation of ERP systems, the Extended Enterprise Resource Planning (EERP or as we prefer to use: e...... impact on extended enterprise architecture.....

  13. ERP II - Next-generation Extended Enterprise Resource Planning

    DEFF Research Database (Denmark)

    Møller, Charles

    2003-01-01

    ERP II (ERP/2) systems is a new concept introduced by Gartner Group in 2000 in order to label the latest extensions of the ERP-systems. The purpose of this paper is to explore the next-generation of ERP systems, the Extended Enterprise Resource Planning (EERP or as we prefer to use: e...... impact on extended enterprise architecture....

  14. NGSS and the Next Generation of Science Teachers

    Science.gov (United States)

    Bybee, Rodger W.

    2014-01-01

    This article centers on the "Next Generation Science Standards" (NGSS) and their implications for teacher development, particularly at the undergraduate level. After an introduction to NGSS and the influence of standards in the educational system, the article addresses specific educational shifts--interconnecting science and engineering…

  15. The Next Generation of Science Standards: Implications for Biology Education

    Science.gov (United States)

    Bybee, Rodger W.

    2012-01-01

    The release of A Framework for K-12 Science Education: Practices, Crosscutting Concepts, and Core Ideas (NRC, 2012) provides the basis for the next generation of science standards. This article first describes that foundation for the life sciences; it then presents a draft standard for natural selection and evolution. Finally, there is a…

  16. Next-generation sequencing approaches to understanding the oral microbiome

    NARCIS (Netherlands)

    Zaura, E.

    2012-01-01

    Until recently, the focus in dental research has been on studying a small fraction of the oral microbiome—so-called opportunistic pathogens. With the advent of next-generation sequencing (NGS) technologies, researchers now have the tools that allow for profiling of the microbiomes and metagenomes at

  17. Promising Practices: Building the Next Generation of School Leaders

    Science.gov (United States)

    Bryant, Jennifer Edic; Escalante, Karen; Selva, Ashley

    2017-01-01

    This study applies transformational leadership theory practices to examine the purposeful ways in which principals work to build the next generation of teacher leaders in response to the shortage of K-12 principals. Given the impact principals have on student development and the shortage of those applying for the principalship, the purpose of this…

  18. Integrative Analysis of the microRNAome and Transcriptome Illuminates the Response of Susceptible Rice Plants to Rice Stripe Virus.

    Directory of Open Access Journals (Sweden)

    Jian Yang

    Full Text Available Rice stripe virus (RSV is one of the most serious rice viruses in East Asia. To investigate how rice responds to RSV infection, we integrated miRNA expression with parallel mRNA transcription profiling by deep sequencing. A total of 570 miRNAs were identified of which 69 miRNAs (56 up-regulated and 13 down-regulated were significantly modified by RSV infection. Digital gene expression (DGE analysis showed that 1274 mRNAs (431 up-regulated and 843 down-regulated genes were differentially expressed as a result of RSV infection. The differential expression of selected miRNAs and mRNAs was confirmed by qRT-PCR. Gene ontology (GO and pathway enrichment analysis showed that a complex set of miRNA and mRNA networks were selectively regulated by RSV infection. In particular, 63 differentially expressed miRNAs were found to be significantly and negatively correlated with 160 target mRNAs. Interestingly, 22 up-regulated miRNAs were negatively correlated with 24 down-regulated mRNAs encoding disease resistance-related proteins, indicating that the host defense responses were selectively suppressed by RSV infection. The suppression of both osa-miR1423-5p- and osa-miR1870-5p-mediated resistance pathways was further confirmed by qRT-PCR. Chloroplast functions were also targeted by RSV, especially the zeaxanthin cycle, which would affect the stability of thylakoid membranes and the biosynthesis of ABA. All these modifications may contribute to viral symptom development and provide new insights into the pathogenicity mechanisms of RSV.

  19. Transcriptome profiling and physiological studies reveal a major role for aromatic amino acids in mercury stress tolerance in rice seedlings.

    Directory of Open Access Journals (Sweden)

    Yun-An Chen

    Full Text Available Mercury (Hg is a serious environmental pollution threat to the planet. The accumulation of Hg in plants disrupts many cellular-level functions and inhibits growth and development, but the mechanism is not fully understood. To gain more insight into the cellular response to Hg, we performed a large-scale analysis of the rice transcriptome during Hg stress. Genes induced with short-term exposure represented functional categories of cell-wall formation, chemical detoxification, secondary metabolism, signal transduction and abiotic stress response. Moreover, Hg stress upregulated several genes involved in aromatic amino acids (Phe and Trp and increased the level of free Phe and Trp content. Exogenous application of Phe and Trp to rice roots enhanced tolerance to Hg and effectively reduced Hg-induced production of reactive oxygen species. Hg induced calcium accumulation and activated mitogen-activated protein kinase. Further characterization of the Hg-responsive genes we identified may be helpful for better understanding the mechanisms of Hg in plants.

  20. Root Transcriptomic Analysis Revealing the Importance of Energy Metabolism to the Development of Deep Roots in Rice (Oryza sativa L.

    Directory of Open Access Journals (Sweden)

    Qiaojun Lou

    2017-07-01

    Full Text Available Drought is the most serious abiotic stress limiting rice production, and deep root is the key contributor to drought avoidance. However, the genetic mechanism regulating the development of deep roots is largely unknown. In this study, the transcriptomes of 74 root samples from 37 rice varieties, representing the extreme genotypes of shallow or deep rooting, were surveyed by RNA-seq. The 13,242 differentially expressed genes (DEGs between deep rooting and shallow rooting varieties (H vs. L were enriched in the pathway of genetic information processing and metabolism, while the 1,052 DEGs between the deep roots and shallow roots from each of the plants (D vs. S were significantly enriched in metabolic pathways especially energy metabolism. Ten quantitative trait transcripts (QTTs were identified and some were involved in energy metabolism. Forty-nine candidate DEGs were confirmed by qRT-PCR and microarray. Through weighted gene co-expression network analysis (WGCNA, we found 18 hub genes. Surprisingly, all these hub genes expressed higher in deep roots than in shallow roots, furthermore half of them functioned in energy metabolism. We also estimated that the ATP production in the deep roots was faster than shallow roots. Our results provided a lot of reliable candidate genes to improve deep rooting, and firstly highlight the importance of energy metabolism to the development of deep roots.

  1. Root Transcriptomic Analysis Revealing the Importance of Energy Metabolism to the Development of Deep Roots in Rice (Oryza sativa L.).

    Science.gov (United States)

    Lou, Qiaojun; Chen, Liang; Mei, Hanwei; Xu, Kai; Wei, Haibin; Feng, Fangjun; Li, Tiemei; Pang, Xiaomeng; Shi, Caiping; Luo, Lijun; Zhong, Yang

    2017-01-01

    Drought is the most serious abiotic stress limiting rice production, and deep root is the key contributor to drought avoidance. However, the genetic mechanism regulating the development of deep roots is largely unknown. In this study, the transcriptomes of 74 root samples from 37 rice varieties, representing the extreme genotypes of shallow or deep rooting, were surveyed by RNA-seq. The 13,242 differentially expressed genes (DEGs) between deep rooting and shallow rooting varieties (H vs. L) were enriched in the pathway of genetic information processing and metabolism, while the 1,052 DEGs between the deep roots and shallow roots from each of the plants (D vs. S) were significantly enriched in metabolic pathways especially energy metabolism. Ten quantitative trait transcripts (QTTs) were identified and some were involved in energy metabolism. Forty-nine candidate DEGs were confirmed by qRT-PCR and microarray. Through weighted gene co-expression network analysis (WGCNA), we found 18 hub genes. Surprisingly, all these hub genes expressed higher in deep roots than in shallow roots, furthermore half of them functioned in energy metabolism. We also estimated that the ATP production in the deep roots was faster than shallow roots. Our results provided a lot of reliable candidate genes to improve deep rooting, and firstly highlight the importance of energy metabolism to the development of deep roots.

  2. Transcriptome profiling and physiological studies reveal a major role for aromatic amino acids in mercury stress tolerance in rice seedlings.

    Science.gov (United States)

    Chen, Yun-An; Chi, Wen-Chang; Trinh, Ngoc Nam; Huang, Li-Yao; Chen, Ying-Chih; Cheng, Kai-Teng; Huang, Tsai-Lien; Lin, Chung-Yi; Huang, Hao-Jen

    2014-01-01

    Mercury (Hg) is a serious environmental pollution threat to the planet. The accumulation of Hg in plants disrupts many cellular-level functions and inhibits growth and development, but the mechanism is not fully understood. To gain more insight into the cellular response to Hg, we performed a large-scale analysis of the rice transcriptome during Hg stress. Genes induced with short-term exposure represented functional categories of cell-wall formation, chemical detoxification, secondary metabolism, signal transduction and abiotic stress response. Moreover, Hg stress upregulated several genes involved in aromatic amino acids (Phe and Trp) and increased the level of free Phe and Trp content. Exogenous application of Phe and Trp to rice roots enhanced tolerance to Hg and effectively reduced Hg-induced production of reactive oxygen species. Hg induced calcium accumulation and activated mitogen-activated protein kinase. Further characterization of the Hg-responsive genes we identified may be helpful for better understanding the mechanisms of Hg in plants.

  3. Comparative Transcriptomes Profiling of Photoperiod-sensitive Male Sterile Rice Nongken 58S During the Male Sterility Transition between Short-day and Long-day

    Directory of Open Access Journals (Sweden)

    Zhu Yingguo

    2011-09-01

    Full Text Available Abstract Background Photoperiod-sensitive genic male sterile (PGMS rice, Nongken 58S, was discovered in 1973. It has been widely used for the production of hybrid rice, and great achievements have been made in improving rice yields. However, the mechanism of the male sterility transition in PGMS rice remains to be determined. Results To investigate the transcriptome during the male sterility transition in PGMS rice, the transcriptome of Nongken 58S under short-day (SD and long-day (LD at the glume primordium differentiation and pistil/stamen primordium forming stages was compared. Seventy-three and 128 differentially expressed genes (DEGs were identified at the glume primordium differentiation and pistil/stamen primordium forming stages, respectively. Five and 22 genes were markedly up-regulated (≥ 5-fold, and two and five genes were considerably down-regulated (≥ 5-fold under SD during the male sterility transition. Gene ontology annotation and pathway analysis revealed that four biological processes and the circadian rhythms and the flowering pathways coordinately regulated the male sterility transition. Further quantitative PCR analysis demonstrated that the circadian rhythms of OsPRR1, OsPRR37, OsGI, Hd1, OsLHY and OsDof in leaves were obviously different between Nongken 58S and Nongken 58 under LD conditions. Moreover, both OsPRR37 and Hd1 in the inflorescence displayed differences between Nongken 58S and Nongken 58 under both LD and SD conditions. Conclusion The results presented here indicate that the transcriptome in Nongken 58S was significantly suppressed under LD conditions. Among these DEGs, the circadian rhythm and the flowering pathway were involved in the male sterility transition. Furthermore, these pathways were coordinately involved in the male sterility transition in PGMS rice.

  4. Root transcriptomes of two acidic soil adapted Indica rice genotypes suggest diverse and complex mechanism of low phosphorus tolerance.

    Science.gov (United States)

    Tyagi, Wricha; Rai, Mayank

    2017-03-01

    Low phosphorus (P) tolerance in rice is a biologically and agronomically important character. Low P tolerant Indica-type rice genotypes, Sahbhagi Dhan (SD) and Chakhao Poreiton (CP), are adapted to acidic soils and show variable response to low P levels. Using RNAseq approach, transcriptome data was generated from roots of SD and CP after 15 days of low P treatment to understand differences and similarities at molecular level. In response to low P, number of genes up-regulated (1318) was more when compared with down-regulated genes (761). Eight hundred twenty-one genes found to be significantly regulated between SD and CP in response to low P. De novo assembly using plant database led to further identification of 1535 novel transcripts. Functional annotation of significantly expressed genes suggests two distinct methods of low P tolerance. While root system architecture in SD works through serine-threonine kinase PSTOL1, suberin-mediated cell wall modification seems to be key in CP. The transcription data indicated that CP relies more on releasing its internally bound Pi and coping with low P levels by transcriptional and translational modifications and using dehydration response-based signals. Role of P transporters seems to be vital in response to low P in CP while sugar- and auxin-mediated pathway seems to be preferred in SD. At least six small RNA clusters overlap with transcripts highly expressed under low P, suggesting role of RNA super clusters in nutrient response in plants. These results help us to understand and thereby devise better strategy to enhance low P tolerance in Indica-type rice.

  5. An integrated SNP mining and utilization (ISMU) pipeline for next generation sequencing data.

    Science.gov (United States)

    Azam, Sarwar; Rathore, Abhishek; Shah, Trushar M; Telluri, Mohan; Amindala, BhanuPrakash; Ruperao, Pradeep; Katta, Mohan A V S K; Varshney, Rajeev K

    2014-01-01

    Open source single nucleotide polymorphism (SNP) discovery pipelines for next generation sequencing data commonly requires working knowledge of command line interface, massive computational resources and expertise which is a daunting task for biologists. Further, the SNP information generated may not be readily used for downstream processes such as genotyping. Hence, a comprehensive pipeline has been developed by integrating several open source next generation sequencing (NGS) tools along with a graphical user interface called Integrated SNP Mining and Utilization (ISMU) for SNP discovery and their utilization by developing genotyping assays. The pipeline features functionalities such as pre-processing of raw data, integration of open source alignment tools (Bowtie2, BWA, Maq, NovoAlign and SOAP2), SNP prediction (SAMtools/SOAPsnp/CNS2snp and CbCC) methods and interfaces for developing genotyping assays. The pipeline outputs a list of high quality SNPs between all pairwise combinations of genotypes analyzed, in addition to the reference genome/sequence. Visualization tools (Tablet and Flapjack) integrated into the pipeline enable inspection of the alignment and errors, if any. The pipeline also provides a confidence score or polymorphism information content value with flanking sequences for identified SNPs in standard format required for developing marker genotyping (KASP and Golden Gate) assays. The pipeline enables users to process a range of NGS datasets such as whole genome re-sequencing, restriction site associated DNA sequencing and transcriptome sequencing data at a fast speed. The pipeline is very useful for plant genetics and breeding community with no computational expertise in order to discover SNPs and utilize in genomics, genetics and breeding studies. The pipeline has been parallelized to process huge datasets of next generation sequencing. It has been developed in Java language and is available at http://hpc.icrisat.cgiar.org/ISMU as a standalone

  6. Transcriptome alteration in a rice introgression line with enhanced alkali tolerance.

    Science.gov (United States)

    Zhang, Yunhong; Lin, Xiuyun; Ou, Xiufang; Hu, Lanjuan; Wang, Jinming; Yang, Chunwu; Wang, Shucai; Liu, Bao

    2013-07-01

    Alkali stress inhibits plant growth and development and thus limits crop productivity. To investigate the possible genetic basis of alkali tolerance in rice, we generated an introgressed rice line (K83) with significantly enhanced tolerance to alkali stress compared to its recipient parental cultivar (Jijing88). By using microarray analysis, we examined the global gene expression profiles of K83 and Jijing88, and found that more than 1200 genes were constitutively and differentially expressed in K83 in comparison to Jijing88 with 572 genes up- and 654 down-regulated. Upon alkali treatment, a total of 347 genes were found up- and 156 down-regulated in K83 compared to 591 and 187, respectively, in Jijing88. Among the up-regulated genes in both K83 and Jijing88, only 34 were constitutively up-regulated in K83, suggesting that both the constitutive differentially expressed genes in K83 and those induced by alkali treatment are most likely responsible for enhanced alkali tolerance. A gene ontology analysis based on all annotated, differentially expressed genes revealed that genes with expression alterations were enriched in pathways involved in metabolic processes, catalytic activity, and transport and transcription factor activities, suggesting that these pathways are associated with alkali stress tolerance in rice. Our results illuminated the novel genetic aspects of alkali tolerance in rice and established a repertory of potential target genes for biotechnological manipulations that can be used to generate alkali-tolerant rice cultivars. Copyright © 2013 Elsevier Masson SAS. All rights reserved.

  7. Plant root transcriptome profiling reveals a strain-dependent response during Azospirillum-rice cooperation

    Directory of Open Access Journals (Sweden)

    Benoît eDrogue

    2014-11-01

    Full Text Available Cooperation involving Plant Growth-Promoting Rhizobacteria results in improvements of plant growth and health. While pathogenic and symbiotic interactions are known to induce transcriptional changes for genes related to plant defence and development, little is known about the impact of phytostimulating rhizobacteria on plant gene expression. This study aims at identifying genes significantly regulated in rice roots upon Azospirillum inoculation, considering possible favored interaction between a strain and its original host cultivar. Genome-wide analyses of Oryza sativa japonica cultivars Cigalon and Nipponbare were performed, by using microarrays, seven days post inoculation with A. lipoferum 4B (isolated from Cigalon or Azospirillum sp. B510 (isolated from Nipponbare and compared to the respective non-inoculated condition. A total of 7,384 genes were significantly regulated, which represent about 16 % of total rice genes. A set of 34 genes is regulated by both Azospirillum strains in both cultivars, including a gene orthologous to PR10 of Brachypodium, and these could represent plant markers of Azospirillum-rice interactions. The results highlight a strain-dependent response of rice, with 83 % of the differentially expressed genes being classified as combination-specific. Whatever the combination, most of the differentially expressed genes are involved in primary metabolism, transport, regulation of transcription and protein fate. When considering genes involved in response to stress and plant defence, it appears that strain B510, a strain displaying endophytic properties, leads to the repression of a wider set of genes than strain 4B. Individual genotypic variations could be the most important driving force of rice roots gene expression upon Azospirillum inoculation. Strain-dependent transcriptional changes observed for genes related to auxin and ethylene signalling highlight the complexity of hormone signalling networks in the Azospirillum-rice

  8. No more non-model species: the promise of next generation sequencing for comparative immunology.

    Science.gov (United States)

    Dheilly, Nolwenn M; Adema, Coen; Raftos, David A; Gourbal, Benjamin; Grunau, Christoph; Du Pasquier, Louis

    2014-07-01

    Next generation sequencing (NGS) allows for the rapid, comprehensive and cost effective analysis of entire genomes and transcriptomes. NGS provides approaches for immune response gene discovery, profiling gene expression over the course of parasitosis, studying mechanisms of diversification of immune receptors and investigating the role of epigenetic mechanisms in regulating immune gene expression and/or diversification. NGS will allow meaningful comparisons to be made between organisms from different taxa in an effort to understand the selection of diverse strategies for host defence under different environmental pathogen pressures. At the same time, it will reveal the shared and unique components of the immunological toolkit and basic functional aspects that are essential for immune defence throughout the living world. In this review, we argue that NGS will revolutionize our understanding of immune responses throughout the animal kingdom because the depth of information it provides will circumvent the need to concentrate on a few "model" species. Copyright © 2014 Elsevier Ltd. All rights reserved.

  9. Next-generation sequencing offers new insights into DNA degradation

    DEFF Research Database (Denmark)

    Overballe-Petersen, Søren; Orlando, Ludovic Antoine Alexandre; Willerslev, Eske

    2012-01-01

    The processes underlying DNA degradation are central to various disciplines, including cancer research, forensics and archaeology. The sequencing of ancient DNA molecules on next-generation sequencing platforms provides direct measurements of cytosine deamination, depurination and fragmentation...... rates that previously were obtained only from extrapolations of results from in vitro kinetic experiments performed over short timescales. For example, recent next-generation sequencing of ancient DNA reveals purine bases as one of the main targets of postmortem hydrolytic damage, through base...... elimination and strand breakage. It also shows substantially increased rates of DNA base-loss at guanosine. In this review, we argue that the latter results from an electron resonance structure unique to guanosine rather than adenosine having an extra resonance structure over guanosine as previously suggested....

  10. Recent progress in nanostructured next-generation field emission devices

    International Nuclear Information System (INIS)

    Mittal, Gaurav; Lahiri, Indranil

    2014-01-01

    Field emission has been known to mankind for more than a century, and extensive research in this field for the last 40–50 years has led to development of exciting applications such as electron sources, miniature x-ray devices, display materials, etc. In the last decade, large-area field emitters were projected as an important material to revolutionize healthcare and medical devices, and space research. With the advent of nanotechnology and advancements related to carbon nanotubes, field emitters are demonstrating highly enhanced performance and novel applications. Next-generation emitters need ultra-high emission current density, high brightness, excellent stability and reproducible performance. Novel design considerations and application of new materials can lead to achievement of these capabilities. This article presents an overview of recent developments in this field and their effects on improved performance of field emitters. These advancements are demonstrated to hold great potential for application in next-generation field emission devices. (topical review)

  11. Recent progress in nanostructured next-generation field emission devices

    Science.gov (United States)

    Mittal, Gaurav; Lahiri, Indranil

    2014-08-01

    Field emission has been known to mankind for more than a century, and extensive research in this field for the last 40-50 years has led to development of exciting applications such as electron sources, miniature x-ray devices, display materials, etc. In the last decade, large-area field emitters were projected as an important material to revolutionize healthcare and medical devices, and space research. With the advent of nanotechnology and advancements related to carbon nanotubes, field emitters are demonstrating highly enhanced performance and novel applications. Next-generation emitters need ultra-high emission current density, high brightness, excellent stability and reproducible performance. Novel design considerations and application of new materials can lead to achievement of these capabilities. This article presents an overview of recent developments in this field and their effects on improved performance of field emitters. These advancements are demonstrated to hold great potential for application in next-generation field emission devices.

  12. Big Data Perspective and Challenges in Next Generation Networks

    Directory of Open Access Journals (Sweden)

    Kashif Sultan

    2018-06-01

    Full Text Available With the development towards the next generation cellular networks, i.e., 5G, the focus has shifted towards meeting the higher data rate requirements, potential of micro cells and millimeter wave spectrum. The goals for next generation networks are very high data rates, low latency and handling of big data. The achievement of these goals definitely require newer architecture designs, upgraded technologies with possible backward support, better security algorithms and intelligent decision making capability. In this survey, we identify the opportunities which can be provided by 5G networks and discuss the underlying challenges towards implementation and realization of the goals of 5G. This survey also provides a discussion on the recent developments made towards standardization, the architectures which may be potential candidates for deployment and the energy concerns in 5G networks. Finally, the paper presents a big data perspective and the potential of machine learning for optimization and decision making in 5G networks.

  13. Next-Generation Sequencing for Binary Protein-Protein Interactions

    Directory of Open Access Journals (Sweden)

    Bernhard eSuter

    2015-12-01

    Full Text Available The yeast two-hybrid (Y2H system exploits host cell genetics in order to display binary protein-protein interactions (PPIs via defined and selectable phenotypes. Numerous improvements have been made to this method, adapting the screening principle for diverse applications, including drug discovery and the scale-up for proteome wide interaction screens in human and other organisms. Here we discuss a systematic workflow and analysis scheme for screening data generated by Y2H and related assays that includes high-throughput selection procedures, readout of comprehensive results via next-generation sequencing (NGS, and the interpretation of interaction data via quantitative statistics. The novel assays and tools will serve the broader scientific community to harness the power of NGS technology to address PPI networks in health and disease. We discuss examples of how this next-generation platform can be applied to address specific questions in diverse fields of biology and medicine.

  14. On reactor type comparisons for the next generation of reactors

    International Nuclear Information System (INIS)

    Alesso, H.P.; Majumdar, K.C.

    1991-01-01

    In this paper, we present a broad comparison of studies for a selected set of parameters for different nuclear reactor types including the next generation. This serves as an overview of key parameters which provide a semi-quantitative decision basis for selecting nuclear strategies. Out of a number of advanced reactor designs of the LWR type, gas cooled type, and FBR type, currently on the drawing board, the Advanced Light Water Reactors (ALWR) seem to have some edge over other types of the next generation of reactors for the near-term application. This is based on a number of attributes related to the benefit of the vast operating experience with LWRs coupled with an estimated low risk profile, economics of scale, degree of utilization of passive systems, simplification in the plant design and layout, modular fabrication and manufacturing. 32 refs., 1 fig., 3 tabs

  15. Next-Generation Sequencing: From Understanding Biology to Personalized Medicine

    Directory of Open Access Journals (Sweden)

    Benjamin Meder

    2013-03-01

    Full Text Available Within just a few years, the new methods for high-throughput next-generation sequencing have generated completely novel insights into the heritability and pathophysiology of human disease. In this review, we wish to highlight the benefits of the current state-of-the-art sequencing technologies for genetic and epigenetic research. We illustrate how these technologies help to constantly improve our understanding of genetic mechanisms in biological systems and summarize the progress made so far. This can be exemplified by the case of heritable heart muscle diseases, so-called cardiomyopathies. Here, next-generation sequencing is able to identify novel disease genes, and first clinical applications demonstrate the successful translation of this technology into personalized patient care.

  16. Precision medicine for cancer with next-generation functional diagnostics.

    Science.gov (United States)

    Friedman, Adam A; Letai, Anthony; Fisher, David E; Flaherty, Keith T

    2015-12-01

    Precision medicine is about matching the right drugs to the right patients. Although this approach is technology agnostic, in cancer there is a tendency to make precision medicine synonymous with genomics. However, genome-based cancer therapeutic matching is limited by incomplete biological understanding of the relationship between phenotype and cancer genotype. This limitation can be addressed by functional testing of live patient tumour cells exposed to potential therapies. Recently, several 'next-generation' functional diagnostic technologies have been reported, including novel methods for tumour manipulation, molecularly precise assays of tumour responses and device-based in situ approaches; these address the limitations of the older generation of chemosensitivity tests. The promise of these new technologies suggests a future diagnostic strategy that integrates functional testing with next-generation sequencing and immunoprofiling to precisely match combination therapies to individual cancer patients.

  17. Converged Wireless Networking and Optimization for Next Generation Services

    Directory of Open Access Journals (Sweden)

    J. Rodriguez

    2010-01-01

    Full Text Available The Next Generation Network (NGN vision is tending towards the convergence of internet and mobile services providing the impetus for new market opportunities in combining the appealing services of internet with the roaming capability of mobile networks. However, this convergence does not go far enough, and with the emergence of new coexistence scenarios, there is a clear need to evolve the current architecture to provide cost-effective end-to-end communication. The LOOP project, a EUREKA-CELTIC driven initiative, is one piece in the jigsaw by helping European industry to sustain a leading role in telecommunications and manufacturing of high-value products and machinery by delivering pioneering converged wireless networking solutions that can be successfully demonstrated. This paper provides an overview of the LOOP project and the key achievements that have been tunneled into first prototypes for showcasing next generation services for operators and process manufacturers.

  18. Results of Analyses of the Next Generation Solvent for Parsons

    International Nuclear Information System (INIS)

    Peters, T.; Washington, A.; Fink, S.

    2012-01-01

    Savannah River National Laboratory (SRNL) prepared a nominal 150 gallon batch of Next Generation Solvent (NGS) for Parsons. This material was then analyzed and tested for cesium mass transfer efficiency. The bulk of the results indicate that the solvent is qualified as acceptable for use in the upcoming pilot-scale testing at Parsons Technology Center. This report describes the analysis and testing of a batch of Next Generation Solvent (NGS) prepared in support of pilot-scale testing in the Parsons Technology Center. A total of ∼150 gallons of NGS solvent was prepared in late November of 2011. Details for the work are contained in a controlled laboratory notebook. Analysis of the Parsons NGS solvent indicates that the material is acceptable for use. SRNL is continuing to improve the analytical method for the guanidine.

  19. Next Generation Campus Network Deployment Project Based on Softswitch

    OpenAIRE

    HU Feng; LIU Ziyan

    2011-01-01

    After analyzing the current networks of Guizhou University,we brought forward a scheme of next generation campus networks based on softswitch technology by choosing SoftX3000 switching system of HuaWei and provided the specific solution of accessing campus networks in this paper. It is proved that this scheme is feasible by using OPNET, which not only accomplished the integration of the PSTN and IP networks but also achieved the combining of voice services and data services.

  20. DARC: Next generation decentralized control framework for robot applications

    DEFF Research Database (Denmark)

    Kjærgaard, Morten; Andersen, Nils Axel; Ravn, Ole

    2013-01-01

    This paper presents DARC, a next generation control framework for robot applications. It is designed to be equally powerful in prototyping research projects and for building serious commercial robots running on low powered embedded hardware, thus closing the gab between research and industry....... It incorporates several new techniques such as a decentralized peer-to-peer architecture, transparent network distribution of the control system, and automatic run-time supervision to guarantee robustness....

  1. Next-Generation Sequencing of Antibody Display Repertoires

    Directory of Open Access Journals (Sweden)

    Romain Rouet

    2018-02-01

    Full Text Available In vitro selection technology has transformed the development of therapeutic monoclonal antibodies. Using methods such as phage, ribosome, and yeast display, high affinity binders can be selected from diverse repertoires. Here, we review strategies for the next-generation sequencing (NGS of phage- and other antibody-display libraries, as well as NGS platforms and analysis tools. Moreover, we discuss recent examples relating to the use of NGS to assess library diversity, clonal enrichment, and affinity maturation.

  2. Next Generation HeliMag UXO Mapping Technology

    Science.gov (United States)

    2010-01-01

    Ancillary instrumentation records aircraft height above ground and attitude. A fluxgate magnetometer is used to allow for aeromagnetic compensation of... Magnetometer System WWII World War II WAA wide area assessment ACKNOWLEDGEMENTS This Next Generation HeliMag Unexploded Ordnance (UXO) Mapping...for deployment of seven total-field magnetometers on a Kevlar reinforced boom mounted on a Bell 206L helicopter. The objectives of this

  3. Next-Generation Sequencing in the Mycology Lab.

    Science.gov (United States)

    Zoll, Jan; Snelders, Eveline; Verweij, Paul E; Melchers, Willem J G

    New state-of-the-art techniques in sequencing offer valuable tools in both detection of mycobiota and in understanding of the molecular mechanisms of resistance against antifungal compounds and virulence. Introduction of new sequencing platform with enhanced capacity and a reduction in costs for sequence analysis provides a potential powerful tool in mycological diagnosis and research. In this review, we summarize the applications of next-generation sequencing techniques in mycology.

  4. Next-generation genome-scale models for metabolic engineering

    DEFF Research Database (Denmark)

    King, Zachary A.; Lloyd, Colton J.; Feist, Adam M.

    2015-01-01

    Constraint-based reconstruction and analysis (COBRA) methods have become widely used tools for metabolic engineering in both academic and industrial laboratories. By employing a genome-scale in silico representation of the metabolic network of a host organism, COBRA methods can be used to predict...... examples of applying COBRA methods to strain optimization are presented and discussed. Then, an outlook is provided on the next generation of COBRA models and the new types of predictions they will enable for systems metabolic engineering....

  5. The Dynamic Pricing of Next Generation Consumer Durables

    OpenAIRE

    Barry L. Bayus

    1992-01-01

    Learning curve effects, aspects of consumer demand models (e.g., reservation price distributions, intertemporal utility maximizing behavior), and competitive activity are reasons which have been offered to explain why prices of new durables decline over time. This paper presents an alternative rationale based on the buying behavior for products with overlapping replacement cycles (i.e., next generation products). A model for consumer sales of a new durable is developed by incorporating the re...

  6. Next Generation Qualification: Nanometrics T120PH Seismometer Evaluation

    Energy Technology Data Exchange (ETDEWEB)

    Merchant, Bion J. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Slad, George William [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

    2017-10-01

    Sandia National Laboratories has tested and evaluated three seismometers, the Trillium 120PH, manufactured by Nanometrics. These seismometers measure broadband ground velocity using a UVW configuration with feedback control in a mechanically levelled borehole package. The purpose of the seismometer evaluation was to determine a measured sensitivity, response, self- noise, dynamic range, and self-calibration ability. The Nanometrics Trillium 120PH seismometers are being evaluated for the U.S. Air Force as part of their Next Generation Qualification effort.

  7. Securing Networks from Modern Threats using Next Generation Firewalls

    OpenAIRE

    Delgiusto, Valter

    2016-01-01

    Classic firewalls have long been unable to cope with modern threats that ordinary Internet users are exposed to. This thesis discusses their successors - the next-generation firewalls. The first part of the thesis describes modern threats and attacks. We described in detail the DoS and APT attacks, which are among the most frequent and which may cause most damage to the system under attack. Then we explained the theoretical basics of firewalls and described the functionalities of next gen...

  8. Applying Next Generation Sequencing to Skeletal Development and Disease

    OpenAIRE

    Bowen, Margot Elizabeth

    2013-01-01

    Next Generation Sequencing (NGS) technologies have dramatically increased the throughput and lowered the cost of DNA sequencing. In this thesis, I apply these technologies to unresolved questions in skeletal development and disease. Firstly, I use targeted re-sequencing of genomic DNA to identify the genetic cause of the cartilage tumor syndrome, metachondromatosis (MC). I show that the majority of MC patients carry heterozygous loss-of-function mutations in the PTPN11 gene, which encodes a p...

  9. Statistical Approaches for Next-Generation Sequencing Data

    OpenAIRE

    Qiao, Dandi

    2012-01-01

    During the last two decades, genotyping technology has advanced rapidly, which enabled the tremendous success of genome-wide association studies (GWAS) in the search of disease susceptibility loci (DSLs). However, only a small fraction of the overall predicted heritability can be explained by the DSLs discovered. One possible explanation for this ”missing heritability” phenomenon is that many causal variants are rare. The recent development of high-throughput next-generation sequencing (NGS) ...

  10. The next generation of power reactors - safety characteristics

    International Nuclear Information System (INIS)

    Modro, S.M.

    1995-01-01

    The next generation of commercial nuclear power reactors is characterized by a new approach to achieving reliability of their safety systems. In contrast to current generation reactors, these designs apply passive safety features that rely on gravity-driven transfer processes or stored energy, such as gas-pressurized accumulators or electric batteries. This paper discusses the passive safety system of the AP600 and Simplified Boiling Water Reactor (SBWR) designs

  11. NREL Next Generation Drivetrain: Mechanical Design and Test Plan (Poster)

    Energy Technology Data Exchange (ETDEWEB)

    Keller, J.; Halse, C.

    2014-05-01

    The Department of Energy and industry partners are sponsoring a $3m project for design and testing of a 'Next Generation' wind turbine drivetrain at the National Renewable Energy Laboratory (NREL). This poster focuses on innovative aspects of the gearbox design, completed as part of an end-to-end systems engineering approach incorporating innovations that increase drivetrain reliability, efficiency, torque density and minimize capital cost.

  12. SMITH: a LIMS for handling next-generation sequencing workflows

    OpenAIRE

    Venco, Francesco; Vaskin, Yuriy; Ceol, Arnaud; Muller, Heiko

    2014-01-01

    Background Life-science laboratories make increasing use of Next Generation Sequencing (NGS) for studying bio-macromolecules and their interactions. Array-based methods for measuring gene expression or protein-DNA interactions are being replaced by RNA-Seq and ChIP-Seq. Sequencing is generally performed by specialized facilities that have to keep track of sequencing requests, trace samples, ensure quality and make data available according to predefined privileges. An integrated tool helps to ...

  13. Developing the next generation of nuclear workers at OPG

    International Nuclear Information System (INIS)

    Spekkens, P.

    2007-01-01

    This presentation is about developing the next generation of nuclear workers at Ontario Power Generation (OPG). Industry developments are creating urgent need to hire, train and retain new staff. OPG has an aggressive hiring campaign. Training organization is challenged to accommodate influx of new staff. Collaborating with colleges and universities is increasing the supply of qualified recruits with an interest in nuclear. Program for functional and leadership training have been developed. Knowledge retention is urgently required

  14. Towards next-generation biodiversity assessment using DNA metabarcoding

    DEFF Research Database (Denmark)

    Taberlet, Pierre; Coissac, Eric; Pompanon, Francois

    2012-01-01

    Virtually all empirical ecological studies require species identification during data collection. DNA metabarcoding refers to the automated identification of multiple species from a single bulk sample containing entire organisms or from a single environmental sample containing degraded DNA (soil......, water, faeces, etc.). It can be implemented for both modern and ancient environmental samples. The availability of next-generation sequencing platforms and the ecologists need for high-throughput taxon identification have facilitated the emergence of DNA metabarcoding. The potential power of DNA...

  15. Next-generation digital information storage in DNA.

    Science.gov (United States)

    Church, George M; Gao, Yuan; Kosuri, Sriram

    2012-09-28

    Digital information is accumulating at an astounding rate, straining our ability to store and archive it. DNA is among the most dense and stable information media known. The development of new technologies in both DNA synthesis and sequencing make DNA an increasingly feasible digital storage medium. We developed a strategy to encode arbitrary digital information in DNA, wrote a 5.27-megabit book using DNA microchips, and read the book by using next-generation DNA sequencing.

  16. NNSA Program Develops the Next Generation of Nuclear Security Experts

    Energy Technology Data Exchange (ETDEWEB)

    Brim, Cornelia P.; Disney, Maren V.

    2015-09-02

    NNSA is fostering the next generation of nuclear security experts is through its successful NNSA Graduate Fellowship Program (NGFP). NGFP offers its Fellows an exceptional career development opportunity through hands-on experience supporting NNSA mission areas across policy and technology disciplines. The one-year assignments give tomorrow’s leaders in global nuclear security and nonproliferation unparalleled exposure through assignments to Program Offices across NNSA.

  17. Next-Generation Sequencing of Tubal Intraepithelial Carcinomas.

    Science.gov (United States)

    McDaniel, Andrew S; Stall, Jennifer N; Hovelson, Daniel H; Cani, Andi K; Liu, Chia-Jen; Tomlins, Scott A; Cho, Kathleen R

    2015-11-01

    High-grade serous carcinoma (HGSC) is the most prevalent and lethal form of ovarian cancer. HGSCs frequently arise in the distal fallopian tubes rather than the ovary, developing from small precursor lesions called serous tubal intraepithelial carcinomas (TICs, or more specifically, STICs). While STICs have been reported to harbor TP53 mutations, detailed molecular characterizations of these lesions are lacking. We performed targeted next-generation sequencing (NGS) on formalin-fixed, paraffin-embedded tissue from 4 women, 2 with HGSC and 2 with uterine endometrioid carcinoma (UEC) who were diagnosed as having synchronous STICs. We detected concordant mutations in both HGSCs with synchronous STICs, including TP53 mutations as well as assumed germline BRCA1/2 alterations, confirming a clonal association between these lesions. Next-generation sequencing confirmed the presence of a STIC clonally unrelated to 1 case of UEC, and NGS of the other tubal lesion diagnosed as a STIC unexpectedly supported the lesion as a micrometastasis from the associated UEC. We demonstrate that targeted NGS can identify genetic alterations in minute lesions, such as TICs, and confirm TP53 mutations as early driving events for HGSC. Next-generation sequencing also demonstrated unexpected associations between presumed STICs and synchronous carcinomas, providing evidence that some TICs are actually metastases rather than HGSC precursors.

  18. Mobility management techniques for the next-generation wireless networks

    Science.gov (United States)

    Sun, Junzhao; Howie, Douglas P.; Sauvola, Jaakko J.

    2001-10-01

    The tremendous demands from social market are pushing the booming development of mobile communications faster than ever before, leading to plenty of new advanced techniques emerging. With the converging of mobile and wireless communications with Internet services, the boundary between mobile personal telecommunications and wireless computer networks is disappearing. Wireless networks of the next generation need the support of all the advances on new architectures, standards, and protocols. Mobility management is an important issue in the area of mobile communications, which can be best solved at the network layer. One of the key features of the next generation wireless networks is all-IP infrastructure. This paper discusses the mobility management schemes for the next generation mobile networks through extending IP's functions with mobility support. A global hierarchical framework model for the mobility management of wireless networks is presented, in which the mobility management is divided into two complementary tasks: macro mobility and micro mobility. As the macro mobility solution, a basic principle of Mobile IP is introduced, together with the optimal schemes and the advances in IPv6. The disadvantages of the Mobile IP on solving the micro mobility problem are analyzed, on the basis of which three main proposals are discussed as the micro mobility solutions for mobile communications, including Hierarchical Mobile IP (HMIP), Cellular IP, and Handoff-Aware Wireless Access Internet Infrastructure (HAWAII). A unified model is also described in which the different micro mobility solutions can coexist simultaneously in mobile networks.

  19. Transcriptional profiling of endocrine cerebro-osteodysplasia using microarray and next-generation sequencing.

    Directory of Open Access Journals (Sweden)

    Piya Lahiry

    Full Text Available BACKGROUND: Transcriptome profiling of patterns of RNA expression is a powerful approach to identify networks of genes that play a role in disease. To date, most mRNA profiling of tissues has been accomplished using microarrays, but next-generation sequencing can offer a richer and more comprehensive picture. METHODOLOGY/PRINCIPAL FINDINGS: ECO is a rare multi-system developmental disorder caused by a homozygous mutation in ICK encoding intestinal cell kinase. We performed gene expression profiling using both cDNA microarrays and next-generation mRNA sequencing (mRNA-seq of skin fibroblasts from ECO-affected subjects. We then validated a subset of differentially expressed transcripts identified by each method using quantitative reverse transcription-polymerase chain reaction (qRT-PCR. Finally, we used gene ontology (GO to identify critical pathways and processes that were abnormal according to each technical platform. Methodologically, mRNA-seq identifies a much larger number of differentially expressed genes with much better correlation to qRT-PCR results than the microarray (r² = 0.794 and 0.137, respectively. Biologically, cDNA microarray identified functional pathways focused on anatomical structure and development, while the mRNA-seq platform identified a higher proportion of genes involved in cell division and DNA replication pathways. CONCLUSIONS/SIGNIFICANCE: Transcriptome profiling with mRNA-seq had greater sensitivity, range and accuracy than the microarray. The two platforms generated different but complementary hypotheses for further evaluation.

  20. Statistical framework for detection of genetically modified organisms based on Next Generation Sequencing.

    Science.gov (United States)

    Willems, Sander; Fraiture, Marie-Alice; Deforce, Dieter; De Keersmaecker, Sigrid C J; De Loose, Marc; Ruttink, Tom; Herman, Philippe; Van Nieuwerburgh, Filip; Roosens, Nancy

    2016-02-01

    Because the number and diversity of genetically modified (GM) crops has significantly increased, their analysis based on real-time PCR (qPCR) methods is becoming increasingly complex and laborious. While several pioneers already investigated Next Generation Sequencing (NGS) as an alternative to qPCR, its practical use has not been assessed for routine analysis. In this study a statistical framework was developed to predict the number of NGS reads needed to detect transgene sequences, to prove their integration into the host genome and to identify the specific transgene event in a sample with known composition. This framework was validated by applying it to experimental data from food matrices composed of pure GM rice, processed GM rice (noodles) or a 10% GM/non-GM rice mixture, revealing some influential factors. Finally, feasibility of NGS for routine analysis of GM crops was investigated by applying the framework to samples commonly encountered in routine analysis of GM crops. Copyright © 2015 The Authors. Published by Elsevier Ltd.. All rights reserved.

  1. How Next-Generation Sequencing Has Aided Our Understanding of the Sequence Composition and Origin of B Chromosomes

    Directory of Open Access Journals (Sweden)

    Alevtina Ruban

    2017-10-01

    Full Text Available Accessory, supernumerary, or—most simply—B chromosomes, are found in many eukaryotic karyotypes. These small chromosomes do not follow the usual pattern of segregation, but rather are transmitted in a higher than expected frequency. As increasingly being demonstrated by next-generation sequencing (NGS, their structure comprises fragments of standard (A chromosomes, although in some plant species, their sequence also includes contributions from organellar genomes. Transcriptomic analyses of various animal and plant species have revealed that, contrary to what used to be the common belief, some of the B chromosome DNA is protein-encoding. This review summarizes the progress in understanding B chromosome biology enabled by the application of next-generation sequencing technology and state-of-the-art bioinformatics. In particular, a contrast is drawn between a direct sequencing approach and a strategy based on a comparative genomics as alternative routes that can be taken towards the identification of B chromosome sequences.

  2. Early changes in shoot transcriptome of rice in response to Rhodotorula mucilaginosa JGTA-S1

    Directory of Open Access Journals (Sweden)

    Chinmay Saha

    2015-12-01

    Full Text Available Yeasts of Rhodotorula genus have been reported to show endophytic colonization in different plants. Some of the Rhodotorula species are found to exhibit plant growth promoting activities and also have been reported to protect plants against invading pathogens. A yeast strain closely related to Rhodotorula mucilaginosa was isolated from the endosphere of Typha angustifolia collected from a Uranium mine. A microarray analysis was performed to investigate the early changes in rice shoot transcripts in response to this yeast (R. mucilaginosa JGTA-S1. Transcriptional changes were monitored in 6 h and 24 h treated rice plant shoots as compared to 0 h control. The microarray data has been submitted to the NCBI GEO repository under the accession number of GSE64321.

  3. Direct target NOTES: prospective applications for next generation robotic platforms.

    Science.gov (United States)

    Atallah, S; Hodges, A; Larach, S W

    2018-05-01

    A new era in surgical robotics has centered on alternative access to anatomic targets and next generation designs include flexible, single-port systems which follow circuitous rather than straight pathways. Such systems maintain a small footprint and could be utilized for specialized operations based on direct organ target natural orifice transluminal endoscopic surgery (NOTES), of which transanal total mesorectal excision (taTME) is an important derivative. During two sessions, four direct target NOTES operations were conducted on a cadaveric model using a flexible robotic system to demonstrate proof-of-concept of the application of a next generation robotic system to specific types of NOTES operations, all of which required removal of a direct target organ through natural orifice access. These four operations were (a) robotic taTME, (b) robotic transvaginal hysterectomy in conjunction with (c) robotic transvaginal salpingo-oophorectomy, and in an ex vivo model, (d) trans-cecal appendectomy. Feasibility was demonstrated in all cases using the Flex ® Robotic System with Colorectal Drive. During taTME, the platform excursion was 17 cm along a non-linear path; operative time was 57 min for the transanal portion of the dissection. Robotic transvaginal hysterectomy was successfully completed in 78 min with transvaginal extraction of the uterus, although laparoscopic assistance was required. Robotic transvaginal unilateral salpingo-oophorectomy with transvaginal extraction of the ovary and fallopian tube was performed without laparoscopic assistance in 13.5 min. In an ex vivo model, a robotic trans-cecal appendectomy was also successfully performed for the purpose of demonstrating proof-of-concept only; this was completed in 24 min. A flexible robotic system has the potential to access anatomy along circuitous paths, making it a suitable platform for direct target NOTES. The conceptual operations posed could be considered suitable for next generation robotics once

  4. Permanent magnet based dipole magnets for next generation light sources

    Directory of Open Access Journals (Sweden)

    Takahiro Watanabe

    2017-07-01

    Full Text Available We have developed permanent magnet based dipole magnets for the next generation light sources. Permanent magnets are advantageous over electromagnets in that they consume less power, are physically more compact, and there is a less risk of power supply failure. However, experience with electromagnets and permanent magnets in the field of accelerators shows that there are still challenges to replacing main magnets of accelerators for light sources with permanent magnets. These include the adjustability of the magnetic field, the temperature dependence of permanent magnets, and the issue of demagnetization. In this paper, we present a design for magnets for future light sources, supported by experimental and numerical results.

  5. Droplet Digital™ PCR Next-Generation Sequencing Library QC Assay.

    Science.gov (United States)

    Heredia, Nicholas J

    2018-01-01

    Digital PCR is a valuable tool to quantify next-generation sequencing (NGS) libraries precisely and accurately. Accurately quantifying NGS libraries enable accurate loading of the libraries on to the sequencer and thus improve sequencing performance by reducing under and overloading error. Accurate quantification also benefits users by enabling uniform loading of indexed/barcoded libraries which in turn greatly improves sequencing uniformity of the indexed/barcoded samples. The advantages gained by employing the Droplet Digital PCR (ddPCR™) library QC assay includes the precise and accurate quantification in addition to size quality assessment, enabling users to QC their sequencing libraries with confidence.

  6. Mobile location services over the next generation IP core network

    DEFF Research Database (Denmark)

    Thongthammachart, Saowanee; Olesen, Henning

    2003-01-01

    network is changing from circuit-switched to packet-switched technology and evolving to an IP core network based on IPv6. The IP core network will allow all IP devices to be connected seamlessly. Due to the movement detection mechanism of Mobile IPv6, mobile terminals will periodically update....... The concept of mobile location services over the next generation IP networks is described. We also discuss the effectiveness of the short-range wireless network regarding a mobile user's position inside buildings and hotspot areas....

  7. Next Generation Nuclear Plant Materials Research and Development Program Plan

    Energy Technology Data Exchange (ETDEWEB)

    G. O. Hayner; E.L. Shaber

    2004-09-01

    The U.S Department of Energy (DOE) has selected the Very High Temperature Reactor (VHTR) design for the Next Generation Nuclear Plant (NGNP) Project. The NGNP will demonstrate the use of nuclear power for electricity and hydrogen production without greenhouse gas emissions. The reactor design will be a graphite moderated, helium-cooled, prismatic or pebble-bed, thermal neutron spectrum reactor that will produce electricity and hydrogen in a state-of-the-art thermodynamically efficient manner. The NGNP will use very high burn-up, low-enriched uranium, TRISO-coated fuel and have a projected plant design service life of 60 years.

  8. Next Generation Nuclear Plant Materials Selection and Qualification Program Plan

    Energy Technology Data Exchange (ETDEWEB)

    R. Doug Hamelin; G. O. Hayner

    2004-11-01

    The U.S. Department of Energy (DOE) has selected the Very High Temperature Reactor (VHTR) design for the Next Generation Nuclear Plant (NGNP) Project. The NGNP will demonstrate the use of nuclear power for electricity and hydrogen production without greenhouse gas emissions. The reactor design is a graphite-moderated, helium-cooled, prismatic or pebble bed thermal neutron spectrum reactor with an average reactor outlet temperature of at least 1000 C. The NGNP will use very high burn up, lowenriched uranium, TRISO-Coated fuel in a once-through fuel cycle. The design service life of the NGNP is 60 years.

  9. Next-generation sequencing in schizophrenia and other neuropsychiatric disorders.

    Science.gov (United States)

    Schreiber, Matthew; Dorschner, Michael; Tsuang, Debby

    2013-10-01

    Schizophrenia is a debilitating lifelong illness that lacks a cure and poses a worldwide public health burden. The disease is characterized by a heterogeneous clinical and genetic presentation that complicates research efforts to identify causative genetic variations. This review examines the potential of current findings in schizophrenia and in other related neuropsychiatric disorders for application in next-generation technologies, particularly whole-exome sequencing (WES) and whole-genome sequencing (WGS). These approaches may lead to the discovery of underlying genetic factors for schizophrenia and may thereby identify and target novel therapeutic targets for this devastating disorder. © 2013 Wiley Periodicals, Inc.

  10. Wireless next generation networks a virtue-based trust model

    CERN Document Server

    Harvey, Melissa

    2014-01-01

    This SpringerBrief proposes a trust model motivated by virtue epistemology, addressing the need for a more efficient and flexible trust model for wireless next generation networks. This theory of trust simplifies the computation and communication overhead of strictly cognitive-computational models of trust. Both the advantages and the challenges of virtue-based trust models are discussed. This brief offers new research and a general theory of rationality that enables users to interpret trust and reason as complementary mechanisms that guide our rational conduct at two different epistemic level

  11. Next generation digital microfluidic technology: Electrophoresis of charged droplets

    Energy Technology Data Exchange (ETDEWEB)

    Im, Do Jin [Pukyong National University, Busan (Korea, Republic of)

    2015-06-15

    Contact charging of a conducting droplet in a dielectric medium is introduced as a novel and useful digital microfluidic technology as well as an interesting scientific phenomenon. The history of this phenomenon, starting from original observations to its interpretations and applications, is presented. The basic principle of the droplet contact charging is also presented. Several fundamental aspects of the droplet contact charging from view points of electrochemistry, surface science, electrocoalescence, and electrohydrodynamics are mentioned. Some promising results for future applications and potential features as a next generation digital microfluidic technology are discussed, especially for 3D organ printing. Finally, implications and significance of the proposed technology for chemical engineering community are discussed.

  12. Semantic e-Learning: Next Generation of e-Learning?

    Science.gov (United States)

    Konstantinos, Markellos; Penelope, Markellou; Giannis, Koutsonikos; Aglaia, Liopa-Tsakalidi

    Semantic e-learning aspires to be the next generation of e-learning, since the understanding of learning materials and knowledge semantics allows their advanced representation, manipulation, sharing, exchange and reuse and ultimately promote efficient online experiences for users. In this context, the paper firstly explores some fundamental Semantic Web technologies and then discusses current and potential applications of these technologies in e-learning domain, namely, Semantic portals, Semantic search, personalization, recommendation systems, social software and Web 2.0 tools. Finally, it highlights future research directions and open issues of the field.

  13. Application of photonics in next generation telecommunication satellites payloads

    Science.gov (United States)

    Anzalchi, J.; Inigo, P.; Roy, B.

    2017-11-01

    Next generation broadband telecommunication satellites are required to provide very high data throughput using complex multibeam architectures. These high throughput `Terabit/s' Satellites will incorporate payloads with very large quantity of conventional RF equipment, co-axial cables, waveguides, harnesses and ancillary equipment, making the Assembly, Integration and Test (AIT) very complex. Use of `RF over Fiber' and associated photonics equipment can make the process of AIT much simpler with the added benefit of significant reduction in number of payload equipment and inherent payload mass.

  14. Next Generation Qualification: Kinemetrics STS-5A Seismometer Evaluation

    Energy Technology Data Exchange (ETDEWEB)

    Merchant, Bion John [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Slad, George William [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

    2017-10-01

    Sandia National Laboratories has tested and evaluated two seismometers, the STS-5A, manufactured by Kinemetrics. These seismometers measure three axes of broadband ground velocity using a UVW configuration with feedback control in a mechanically levelled borehole package. The purpose of the seismometer evaluation was to determine a measured sensitivity, response, self-noise, dynamic range, and self-calibration ability. The Kinemetrics STS-5A seismometers are being evaluated for the U.S. Air Force as part of their Next Generation Qualification effort.

  15. Next generation Zero-Code control system UI

    CERN Multimedia

    CERN. Geneva

    2017-01-01

    Developing ergonomic user interfaces for control systems is challenging, especially during machine upgrade and commissioning where several small changes may suddenly be required. Zero-code systems, such as *Inspector*, provide agile features for creating and maintaining control system interfaces. More so, these next generation Zero-code systems bring simplicity and uniformity and brake the boundaries between Users and Developers. In this talk we present *Inspector*, a CERN made Zero-code application development system, and we introduce the major differences and advantages of using Zero-code control systems to develop operational UI.

  16. Feasibility of a next generation underground water Cherenkov detector: UNO

    International Nuclear Information System (INIS)

    Jung, Chang Kee

    2000-01-01

    The feasibility of a next generation underground water Cherenkov detector is examined and a conceptual design (UNO) is presented. The design has a linear detector configuration with a total volume of 650 kton which is 13 times the total volume of the Super-Kamiokande detector. It corresponds to a 20 times increase in fiducial volume for physics analysis. The physics goals of UNO are to increase the sensitivity of the search for nucleon decay by a factor of ten and to make precision measurements of the solar and atmospheric neutrino properties. In addition, the detection sensitivity for supernova neutrinos will reach as far as the Andromeda galaxy

  17. Beamstrahlung spectra in next generation linear colliders. Revision

    Energy Technology Data Exchange (ETDEWEB)

    Barklow, T.; Chen, P. [Stanford Linear Accelerator Center, Menlo Park, CA (United States); Kozanecki, W. [DAPNIA-SPP, CEN-Saclay (France)

    1992-04-01

    For the next generation of linear colliders, the energy loss due to beamstrahlung during the collision of the e{sup +}e{sup {minus}} beams is expected to substantially influence the effective center-of-mass energy distribution of the colliding particles. In this paper, we first derive analytical formulae for the electron and photon energy spectra under multiple beamstrahlung processes, and for the e{sup +}e{sup {minus}} and {gamma}{gamma} differential luminosities. We then apply our formulation to various classes of 500 GeV e{sup +}e{sup {minus}} linear collider designs currently under study.

  18. JVM: Java Visual Mapping tool for next generation sequencing read.

    Science.gov (United States)

    Yang, Ye; Liu, Juan

    2015-01-01

    We developed a program JVM (Java Visual Mapping) for mapping next generation sequencing read to reference sequence. The program is implemented in Java and is designed to deal with millions of short read generated by sequence alignment using the Illumina sequencing technology. It employs seed index strategy and octal encoding operations for sequence alignments. JVM is useful for DNA-Seq, RNA-Seq when dealing with single-end resequencing. JVM is a desktop application, which supports reads capacity from 1 MB to 10 GB.

  19. Technology Innovations from NASA's Next Generation Launch Technology Program

    Science.gov (United States)

    Cook, Stephen A.; Morris, Charles E. K., Jr.; Tyson, Richard W.

    2004-01-01

    NASA's Next Generation Launch Technology Program has been on the cutting edge of technology, improving the safety, affordability, and reliability of future space-launch-transportation systems. The array of projects focused on propulsion, airframe, and other vehicle systems. Achievements range from building miniature fuel/oxygen sensors to hot-firings of major rocket-engine systems as well as extreme thermo-mechanical testing of large-scale structures. Results to date have significantly advanced technology readiness for future space-launch systems using either airbreathing or rocket propulsion.

  20. Novel nanostructures for next generation dye-sensitized solar cells

    KAUST Repository

    Tétreault, Nicolas

    2012-01-01

    Herein, we review our latest advancements in nanostructured photoanodes for next generation photovoltaics in general and dye-sensitized solar cells in particular. Bottom-up self-assembly techniques are developed to fabricate large-area 3D nanostructures that enable enhanced charge extraction and light harvesting through optical scattering or photonic crystal effects to improve photocurrent, photovoltage and fill factor. Using generalized techniques to fabricate specialized nanostructures enables specific optoelectronic and physical characteristics like conduction, charge extraction, injection, recombination and light harvesting but also helps improve mechanical flexibility and long-term stability in low cost materials. © 2012 The Royal Society of Chemistry.

  1. Use of next-generation sequencing in oral cavity cancer

    DEFF Research Database (Denmark)

    Tabatabaeifar, Siavosh; Kruse, Torben A; Thomassen, Mads

    Background: Oral cavity cancer is a subgroup of head and neck cancer which is the world’s 6th most common cancer form. Oral squamous cell carcinomas (OSCC) constitute almost all oral cavity cancers, and OSCC are primarily attributed by excessive alcohol consumption and tobacco exposure...... of tumour cells exists. Conclusions: Use of next generation sequencing in oral cavity cancer can give valuable insight into the biology of the disease. By investigating intra tumour heterogeneity we see that the different tumour specimens in each patient are quite homogenous, but evidence of heterogeneous...

  2. Convergence of wireless, wireline, and photonics next generation networks

    CERN Document Server

    Iniewski, Krzysztof

    2010-01-01

    Filled with illustrations and practical examples from industry, this book provides a brief but comprehensive introduction to the next-generation wireless networks that will soon replace more traditional wired technologies. Written by a mixture of top industrial experts and key academic professors, it is the only book available that covers both wireless networks (such as wireless local area and personal area networks) and optical networks (such as long-haul and metropolitan networks) in one volume. It gives engineers and engineering students the necessary knowledge to meet challenges of next-ge

  3. Diagnostics of Primary Immunodeficiencies through Next Generation Sequencing

    Directory of Open Access Journals (Sweden)

    Vera Gallo

    2016-11-01

    Full Text Available Background: Recently, a growing number of novel genetic defects underlying primary immunodeficiencies (PID have been identified, increasing the number of PID up to more than 250 well-defined forms. Next-generation sequencing (NGS technologies and proper filtering strategies greatly contributed to this rapid evolution, providing the possibility to rapidly and simultaneously analyze large numbers of genes or the whole exome. Objective: To evaluate the role of targeted next-generation sequencing and whole exome sequencing in the diagnosis of a case series, characterized by complex or atypical clinical features suggesting a PID, difficult to diagnose using the current diagnostic procedures.Methods: We retrospectively analyzed genetic variants identified through targeted next-generation sequencing or whole exome sequencing in 45 patients with complex PID of unknown etiology. Results: 40 variants were identified using targeted next-generation sequencing, while 5 were identified using whole exome sequencing. Newly identified genetic variants were classified into 4 groups: I variations associated with a well-defined PID; II variations associated with atypical features of a well-defined PID; III functionally relevant variations potentially involved in the immunological features; IV non-diagnostic genotype, in whom the link with phenotype is missing. We reached a conclusive genetic diagnosis in 7/45 patients (~16%. Among them, 4 patients presented with a typical well-defined PID. In the remaining 3 cases, mutations were associated with unexpected clinical features, expanding the phenotypic spectrum of typical PIDs. In addition, we identified 31 variants in 10 patients with complex phenotype, individually not causative per se of the disorder.Conclusion: NGS technologies represent a cost-effective and rapid first-line genetic approaches for the evaluation of complex PIDs. Whole exome sequencing, despite a moderate higher cost compared to targeted, is

  4. Energy Efficient Glass Melting - The Next Generation Melter

    Energy Technology Data Exchange (ETDEWEB)

    David Rue

    2008-03-01

    The objective of this project is to demonstrate a high intensity glass melter, based on the submerged combustion melting technology. This melter will serve as the melting and homogenization section of a segmented, lower-capital cost, energy-efficient Next Generation Glass Melting System (NGMS). After this project, the melter will be ready to move toward commercial trials for some glasses needing little refining (fiberglass, etc.). For other glasses, a second project Phase or glass industry research is anticipated to develop the fining stage of the NGMS process.

  5. Next Generation Luminaire (NGL) Downlight Demonstration Project, Hilton Columbus Downtown

    Energy Technology Data Exchange (ETDEWEB)

    Davis, R. G. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Perrin, T. E. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

    2014-09-30

    At the Hilton Columbus Downtown hotel in Ohio, DOE's Better Buildings Alliance conducted a demonstration of Next Generation Luminaires-winning downlights installed in all guest rooms and suites prior to the hotel's 2012 opening. After a post-occupancy assessment, the LED downlights not only provided the aesthetic appearance and dimming functionality desired, but also provided 50% energy savings relative to a comparable CFL downlight and enabled the lighting power to be more than 20% below that allowed by code.

  6. A Survey on Next-generation Power Grid Data Architecture

    Energy Technology Data Exchange (ETDEWEB)

    You, Shutang [University of Tennessee, Knoxville (UTK); Zhu, Dr. Lin [University of Tennessee (UT); Liu, Yong [ORNL; Liu, Yilu [ORNL; Shankar, Mallikarjun (Arjun) [ORNL; Robertson, Russell [Grid Protection Alliance; King Jr, Thomas J [ORNL

    2015-01-01

    The operation and control of power grids will increasingly rely on data. A high-speed, reliable, flexible and secure data architecture is the prerequisite of the next-generation power grid. This paper summarizes the challenges in collecting and utilizing power grid data, and then provides reference data architecture for future power grids. Based on the data architecture deployment, related research on data architecture is reviewed and summarized in several categories including data measurement/actuation, data transmission, data service layer, data utilization, as well as two cross-cutting issues, interoperability and cyber security. Research gaps and future work are also presented.

  7. Applications and challenges of next-generation sequencing in Brassica species.

    Science.gov (United States)

    Wei, Lijuan; Xiao, Meili; Hayward, Alice; Fu, Donghui

    2013-12-01

    Next-generation sequencing (NGS) produces numerous (often millions) short DNA sequence reads, typically varying between 25 and 400 bp in length, at a relatively low cost and in a short time. This revolutionary technology is being increasingly applied in whole-genome, transcriptome, epigenome and small RNA sequencing, molecular marker and gene discovery, comparative and evolutionary genomics, and association studies. The Brassica genus comprises some of the most agro-economically important crops, providing abundant vegetables, condiments, fodder, oil and medicinal products. Many Brassica species have undergone the process of polyploidization, which makes their genomes exceptionally complex and can create difficulties in genomics research. NGS injects new vigor into Brassica research, yet also faces specific challenges in the analysis of complex crop genomes and traits. In this article, we review the advantages and limitations of different NGS technologies and their applications and challenges, using Brassica as an advanced model system for agronomically important, polyploid crops. Specifically, we focus on the use of NGS for genome resequencing, transcriptome sequencing, development of single-nucleotide polymorphism markers, and identification of novel microRNAs and their targets. We present trends and advances in NGS technology in relation to Brassica crop improvement, with wide application for sophisticated genomics research into agronomically important polyploid crops.

  8. Comparative Transcriptome Profiling of Rice Near-Isogenic Line Carrying Xa23 under Infection of Xanthomonas oryzae pv. oryzae.

    Science.gov (United States)

    Tariq, Rezwan; Wang, Chunlian; Qin, Tengfei; Xu, Feifei; Tang, Yongchao; Gao, Ying; Ji, Zhiyuan; Zhao, Kaijun

    2018-03-02

    Bacterial blight, caused by Xanthomonas oryzae pv. oryzae ( Xoo ), is an overwhelming disease in rice-growing regions worldwide. Our previous studies revealed that the executor R gene Xa23 confers broad-spectrum disease resistance to all naturally occurring biotypes of Xoo . In this study, comparative transcriptomic profiling of two near-isogenic lines (NILs), CBB23 (harboring Xa23 ) and JG30 (without Xa23 ), before and after infection of the Xoo strain, PXO99 A , was done by RNA sequencing, to identify genes associated with the resistance. After high throughput sequencing, 1645 differentially expressed genes (DEGs) were identified between CBB23 and JG30 at different time points. Gene Ontlogy (GO) analysis categorized the DEGs into biological process, molecular function, and cellular component. KEGG analysis categorized the DEGs into different pathways, and phenylpropanoid biosynthesis was the most prominent pathway, followed by biosynthesis of plant hormones, flavonoid biosynthesis, and glycolysis/gluconeogenesis. Further analysis led to the identification of differentially expressed transcription factors (TFs) and different kinase responsive genes in CBB23, than that in JG30. Besides TFs and kinase responsive genes, DEGs related to ethylene, jasmonic acid, and secondary metabolites were also identified in both genotypes after PXO99 A infection. The data of DEGs are a precious resource for further clarifying the network of Xa23 -mediated resistance.

  9. Genomic and transcriptomic insights into the cytochrome P450 monooxygenase gene repertoire in the rice pest brown planthopper, Nilaparvata lugens.

    Science.gov (United States)

    Lao, Shu-Hua; Huang, Xiao-Hui; Huang, Hai-Jian; Liu, Cheng-Wen; Zhang, Chuan-Xi; Bao, Yan-Yuan

    2015-11-01

    The cytochrome P450 monooxygenase (P450) gene family is one of the most abundant eukaryotic gene families that encode detoxification enzymes. In this study, we identified an abundance of P450 gene repertoire through genome- and transcriptome-wide analysis in the brown planthopper (Nilaparvata lugens), the most destructive rice pest in Asia. Detailed gene information including the exon-intron organization, size, transcription orientation and distribution in the genome revealed that many P450 loci were closely situated on the same scaffold, indicating frequent occurrence of gene duplications. Insecticide-response expression profiling revealed that imidacloprid significantly increased NlCYP6CS1v2, NLCYP4CE1v2, NlCYP4DE1, NlCYP417A1v2 and NlCYP439A1 expression; while triazophos and deltamethrin notably enhanced NlCYP303A1 expression. Expression analysis at the developmental stage showed the egg-, nymph-, male- and female-specific expression patterns of N. lugens P450 genes. These novel findings will be helpful for clarifying the P450 functions in physiological processes including development, reproduction and insecticide resistance in this insect species. Copyright © 2015 Elsevier Inc. All rights reserved.

  10. Towards Next Generation Internet Management:CNGI-CERNET2EXPERIENCES

    Institute of Scientific and Technical Information of China (English)

    Jia-Hai Yang; Hui Zhang; Jin-Xiang Zhang; Chang-Qing An

    2009-01-01

    Manageability is an important feature of next generation Internet; management and monitoring of IPv6-based networks are proving a big challenge. While leveraging current IPv4-based SNMP management scheme to IPv6 networks'management need is necessary, it is more urgent to coin a new network management architecture to accommodate the scalability and extensibility requirements of next generation Internet management. The paper proposes a novel network management architecture, IMN (Internet Management Network), which creates an overlay network of management nodes.While each management node can perform management tasks autonomously and independently, it can finish more sophis-ticated management tasks by collaboratively invoking management operations or sharing information provided by other management nodes. P2P-based communication services are introduced in IMN to enable such collaboration. The paper presents a prototyping implementation based on the Web service related technology, as well as some of the key technologies,especially solutions to those issues arising from the management practice of CERNET2. Experiences of deployment of CERNET2 operation and lessons learned from the management practice are discussed.

  11. Next Generation Antibody Therapeutics Using Bispecific Antibody Technology.

    Science.gov (United States)

    Igawa, Tomoyuki

    2017-01-01

    Nearly fifty monoclonal antibodies have been approved to date, and the market for monoclonal antibodies is expected to continue to grow. Since global competition in the field of antibody therapeutics is intense, we need to establish novel antibody engineering technologies to provide true benefit for patients, with differentiated product values. Bispecific antibodies are among the next generation of antibody therapeutics that can bind to two different target antigens by the two arms of immunoglobulin G (IgG) molecule, and are thus believed to be applicable to various therapeutic needs. Until recently, large scale manufacturing of human IgG bispecific antibody was impossible. We have established a technology, named asymmetric re-engineering technology (ART)-Ig, to enable large scale manufacturing of bispecific antibodies. Three examples of next generation antibody therapeutics using ART-Ig technology are described. Recent updates on bispecific antibodies against factor IXa and factor X for the treatment of hemophilia A, bispecific antibodies against a tumor specific antigen and T cell surface marker CD3 for cancer immunotherapy, and bispecific antibodies against two different epitopes of soluble antigen with pH-dependent binding property for the elimination of soluble antigen from plasma are also described.

  12. Next-generation storm tracking for minimizing service interruption

    Energy Technology Data Exchange (ETDEWEB)

    Sznaider, R. [Meteorlogix, Minneapolis, MN (United States)

    2002-08-01

    Several technological changes have taken place in the field of weather radar since its discovery during World War II. A wide variety of industries have benefited over the years from conventional weather radar displays, providing assistance in forecasting and estimating the potential severity of storms. The characteristics of individual storm cells can now be derived from the next-generation of weather radar systems (NEXRAD). The determination of which storm cells possess distinct features such as large hail or developing tornadoes was made possible through the fusing of various pieces of information with radar pictures. To exactly determine when and where a storm will hit, this data can be combined and overlaid into a display that includes the geographical physical landmarks of a specific region. Combining Geographic Information Systems (GIS) and storm tracking provides a more complete, timely and accurate forecast, which clearly benefits the electric utilities industries. The generation and production of energy are dependent on how hot or cold it will be today and tomorrow. The author described each major feature of this next-generation weather radar system. 9 figs.

  13. Next-generation nozzle check valve significantly reduces operating costs

    Energy Technology Data Exchange (ETDEWEB)

    Roorda, O. [SMX International, Toronto, ON (Canada)

    2009-01-15

    Check valves perform an important function in preventing reverse flow and protecting plant and mechanical equipment. However, the variety of different types of valves and extreme differences in performance even within one type can change maintenance requirements and life cycle costs, amounting to millions of dollars over the typical 15-year design life of piping components. A next-generation non-slam nozzle check valve which prevents return flow has greatly reduced operating costs by protecting the mechanical equipment in a piping system. This article described the check valve varieties such as the swing check valve, a dual-plate check valve, and nozzle check valves. Advancements in optimized design of a non-slam nozzle check valve were also discussed, with particular reference to computer flow modelling such as computational fluid dynamics; computer stress modelling such as finite element analysis; and flow testing (using rapid prototype development and flow loop testing), both to improve dynamic performance and reduce hydraulic losses. The benefits of maximized dynamic performance and minimized pressure loss from the new designed valve were also outlined. It was concluded that this latest non-slam nozzle check valve design has potential applications in natural gas, liquefied natural gas, and oil pipelines, including subsea applications, as well as refineries, and petrochemical plants among others, and is suitable for horizontal and vertical installation. The result of this next-generation nozzle check valve design is not only superior performance, and effective protection of mechanical equipment but also minimized life cycle costs. 1 fig.

  14. Engineering Micromechanical Systems for the Next Generation Wireless Capsule Endoscopy

    Directory of Open Access Journals (Sweden)

    Stephen Woods

    2015-01-01

    Full Text Available Wireless capsule endoscopy (WCE enables the detection and diagnosis of inflammatory bowel diseases such as Crohn’s disease and ulcerative colitis. However treatment of these pathologies can only be achieved through conventional means. This paper describes the next generation WCE with increased functionality to enable targeted drug delivery in the small intestinal tract. A prototype microrobot fabricated in Nylon 6 is presented which is capable of resisting peristaltic pressure through the deployment of an integrated holding mechanism and delivering targeted therapy. The holding action is achieved by extending an “anchor” spanning a 60.4 mm circumference, for an 11.0 mm diameter WCE. This function is achieved by a mechanism that occupies only 347.0 mm3 volume, including mechanics and actuator. A micropositioning mechanism is described which utilises a single micromotor to radially position and then deploy a needle 1.5 mm outside the microrobot’s body to deliver a 1 mL dose of medication to a targeted site. An analysis of the mechanics required to drive the holding mechanism is presented and an overview of microactuators and the state of the art in WCE is discussed. It is envisaged that this novel functionality will empower the next generation of WCE to help diagnose and treat pathologies of the GI tract.

  15. Engineering Micromechanical Systems for the Next Generation Wireless Capsule Endoscopy

    Science.gov (United States)

    Woods, Stephen; Constandinou, Timothy

    2015-01-01

    Wireless capsule endoscopy (WCE) enables the detection and diagnosis of inflammatory bowel diseases such as Crohn's disease and ulcerative colitis. However treatment of these pathologies can only be achieved through conventional means. This paper describes the next generation WCE with increased functionality to enable targeted drug delivery in the small intestinal tract. A prototype microrobot fabricated in Nylon 6 is presented which is capable of resisting peristaltic pressure through the deployment of an integrated holding mechanism and delivering targeted therapy. The holding action is achieved by extending an “anchor” spanning a 60.4 mm circumference, for an 11.0 mm diameter WCE. This function is achieved by a mechanism that occupies only 347.0 mm3 volume, including mechanics and actuator. A micropositioning mechanism is described which utilises a single micromotor to radially position and then deploy a needle 1.5 mm outside the microrobot's body to deliver a 1 mL dose of medication to a targeted site. An analysis of the mechanics required to drive the holding mechanism is presented and an overview of microactuators and the state of the art in WCE is discussed. It is envisaged that this novel functionality will empower the next generation of WCE to help diagnose and treat pathologies of the GI tract. PMID:26258143

  16. Safety reviews of next-generation light-water reactors

    International Nuclear Information System (INIS)

    Kudrick, J.A.; Wilson, J.N.

    1997-01-01

    The Nuclear Regulatory Commission (NRC) is reviewing three applications for design certification under its new licensing process. The U.S. Advanced Boiling Water Reactor (ABWR) and System 80+ designs have received final design approvals. The AP600 design review is continuing. The goals of design certification are to achieve early resolution of safety issues and to provide a more stable and predictable licensing process. NRC also reviewed the Utility Requirements Document (URD) of the Electric Power Research Institute (EPRI) and determined that its guidance does not conflict with NRC requirements. This review led to the identification and resolution of many generic safety issues. The NRC determined that next-generation reactor designs should achieve a higher level of safety for selected technical and severe accident issues. Accordingly, NRC developed new review standards for these designs based on (1) operating experience, including the accident at Three Mile Island, Unit 2; (2) the results of probabilistic risk assessments of current and next-generation reactor designs; (3) early efforts on severe accident rulemaking; and (4) research conducted to address previously identified generic safety issues. The additional standards were used during the individual design reviews and the resolutions are documented in the design certification rules. 12 refs

  17. Standardization and quality management in next-generation sequencing.

    Science.gov (United States)

    Endrullat, Christoph; Glökler, Jörn; Franke, Philipp; Frohme, Marcus

    2016-09-01

    DNA sequencing continues to evolve quickly even after > 30 years. Many new platforms suddenly appeared and former established systems have vanished in almost the same manner. Since establishment of next-generation sequencing devices, this progress gains momentum due to the continually growing demand for higher throughput, lower costs and better quality of data. In consequence of this rapid development, standardized procedures and data formats as well as comprehensive quality management considerations are still scarce. Here, we listed and summarized current standardization efforts and quality management initiatives from companies, organizations and societies in form of published studies and ongoing projects. These comprise on the one hand quality documentation issues like technical notes, accreditation checklists and guidelines for validation of sequencing workflows. On the other hand, general standard proposals and quality metrics are developed and applied to the sequencing workflow steps with the main focus on upstream processes. Finally, certain standard developments for downstream pipeline data handling, processing and storage are discussed in brief. These standardization approaches represent a first basis for continuing work in order to prospectively implement next-generation sequencing in important areas such as clinical diagnostics, where reliable results and fast processing is crucial. Additionally, these efforts will exert a decisive influence on traceability and reproducibility of sequence data.

  18. Engineered CRISPR Systems for Next Generation Gene Therapies.

    Science.gov (United States)

    Pineda, Michael; Moghadam, Farzaneh; Ebrahimkhani, Mo R; Kiani, Samira

    2017-09-15

    An ideal in vivo gene therapy platform provides safe, reprogrammable, and precise strategies which modulate cell and tissue gene regulatory networks with a high temporal and spatial resolution. Clustered regularly interspaced short palindromic repeats (CRISPR), a bacterial adoptive immune system, and its CRISPR-associated protein 9 (Cas9), have gained attention for the ability to target and modify DNA sequences on demand with unprecedented flexibility and precision. The precision and programmability of Cas9 is derived from its complexation with a guide-RNA (gRNA) that is complementary to a desired genomic sequence. CRISPR systems open-up widespread applications including genetic disease modeling, functional screens, and synthetic gene regulation. The plausibility of in vivo genetic engineering using CRISPR has garnered significant traction as a next generation in vivo therapeutic. However, there are hurdles that need to be addressed before CRISPR-based strategies are fully implemented. Some key issues center on the controllability of the CRISPR platform, including minimizing genomic-off target effects and maximizing in vivo gene editing efficiency, in vivo cellular delivery, and spatial-temporal regulation. The modifiable components of CRISPR systems: Cas9 protein, gRNA, delivery platform, and the form of CRISPR system delivered (DNA, RNA, or ribonucleoprotein) have recently been engineered independently to design a better genome engineering toolbox. This review focuses on evaluating CRISPR potential as a next generation in vivo gene therapy platform and discusses bioengineering advancements that can address challenges associated with clinical translation of this emerging technology.

  19. Next-Generation Beneficial Microbes: The Case of Akkermansia muciniphila

    Directory of Open Access Journals (Sweden)

    Patrice D. Cani

    2017-09-01

    Full Text Available Metabolic disorders associated with obesity and cardiometabolic disorders are worldwide epidemic. Among the different environmental factors, the gut microbiota is now considered as a key player interfering with energy metabolism and host susceptibility to several non-communicable diseases. Among the next-generation beneficial microbes that have been identified, Akkermansia muciniphila is a promising candidate. Indeed, A. muciniphila is inversely associated with obesity, diabetes, cardiometabolic diseases and low-grade inflammation. Besides the numerous correlations observed, a large body of evidence has demonstrated the causal beneficial impact of this bacterium in a variety of preclinical models. Translating these exciting observations to human would be the next logic step and it now appears that several obstacles that would prevent the use of A. muciniphila administration in humans have been overcome. Moreover, several lines of evidence indicate that pasteurization of A. muciniphila not only increases its stability but more importantly increases its efficacy. This strongly positions A. muciniphila in the forefront of next-generation candidates for developing novel food or pharma supplements with beneficial effects. Finally, a specific protein present on the outer membrane of A. muciniphila, termed Amuc_1100, could be strong candidate for future drug development. In conclusion, as plants and its related knowledge, known as pharmacognosy, have been the source for designing drugs over the last century, we propose that microbes and microbiomegnosy, or knowledge of our gut microbiome, can become a novel source of future therapies.

  20. Next Generation Workload Management and Analysis System for Big Data

    Energy Technology Data Exchange (ETDEWEB)

    De, Kaushik [Univ. of Texas, Arlington, TX (United States)

    2017-04-24

    We report on the activities and accomplishments of a four-year project (a three-year grant followed by a one-year no cost extension) to develop a next generation workload management system for Big Data. The new system is based on the highly successful PanDA software developed for High Energy Physics (HEP) in 2005. PanDA is used by the ATLAS experiment at the Large Hadron Collider (LHC), and the AMS experiment at the space station. The program of work described here was carried out by two teams of developers working collaboratively at Brookhaven National Laboratory (BNL) and the University of Texas at Arlington (UTA). These teams worked closely with the original PanDA team – for the sake of clarity the work of the next generation team will be referred to as the BigPanDA project. Their work has led to the adoption of BigPanDA by the COMPASS experiment at CERN, and many other experiments and science projects worldwide.

  1. Designing Next Generation Massively Multithreaded Architectures for Irregular Applications

    Energy Technology Data Exchange (ETDEWEB)

    Tumeo, Antonino; Secchi, Simone; Villa, Oreste

    2012-08-31

    Irregular applications, such as data mining or graph-based computations, show unpredictable memory/network access patterns and control structures. Massively multi-threaded architectures with large node count, like the Cray XMT, have been shown to address their requirements better than commodity clusters. In this paper we present the approaches that we are currently pursuing to design future generations of these architectures. First, we introduce the Cray XMT and compare it to other multithreaded architectures. We then propose an evolution of the architecture, integrating multiple cores per node and next generation network interconnect. We advocate the use of hardware support for remote memory reference aggregation to optimize network utilization. For this evaluation we developed a highly parallel, custom simulation infrastructure for multi-threaded systems. Our simulator executes unmodified XMT binaries with very large datasets, capturing effects due to contention and hot-spotting, while predicting execution times with greater than 90% accuracy. We also discuss the FPGA prototyping approach that we are employing to study efficient support for irregular applications in next generation manycore processors.

  2. Next generation solar energy. From fundamentals to applications

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2011-07-01

    Within the International Conference between 12th and 14th December, 2011 in Erlangen (Federal Republic of Germany) the following lectures were presented: (1) The opto-electronic physics required to approach the Shockley-Queisser efficiency limit (E. Yablonovitch); (2) The Shockley-Queisser-limit and beyond (G.H. Bauer); (3) Designing composite nanomaterials for photovoltaic devices (B. Rech); (4) Light-Material interactions in energy conversion (H. Atwater); (5) Functional imaging of hybrid nanostructures - Visualizing mechanisms of solar energy utilization (L. Lauhon); (6) Are photosynthetic proteins suitable for PV applications (Y. Rosenwaks); (7) Detailed balance limit in photovoltaic systems (U. Rau); (8) Plasmonics and nanophotonics for next generation photovoltaics (E. Garnett); (9) Dispersion, wave propagation and efficiency analysis of nanowire solar cells (B. Witzigmann); (10) Application of nanostructures to next generation photovoltaics - Opportunities and challenges from an industrial research perspective (L. Tsakalakos); (11) Triplet states in organic and organometallic photovoltaic cells (K.S. Schanze); (12) New photoelectrode architectures (J.T. Hupp); (13) Dendrimers for optoelectronic and photovoltaic applications (P. Ceroni); (14) Photon management with luminescent materials (J. Goldschmidt); (15) Economical aspects of next generation solar cell technologies (W. Hoffmann); (16) Scalability in solar energy conversion - First-row transition metal-based chromophores for dye-sensitized solar cells (J. McCusker); (17) Designing organic materials for photovoltaic devices (A. Harriman); (18) Molecular photovoltaics - What can we learn from model studies (B. Albinsson); (19) Porphyrin-sensitised titanium dioxide solar cells (D. Officer); (20) Light-harvesting: Charge separation, and charge-transportation properties of novel materials for organic photovoltaics (H. Imahori); (21) Phthalocyanines for molecular photovoltaics (T. Torres); (22) Photophysics of

  3. Cost and schedule reduction for next-generation Candu

    International Nuclear Information System (INIS)

    Hopwood, J.M.; Yu, S.; Pakan, M.; Soulard, M.

    2002-01-01

    AECL has developed a suite of technologies for Candu R reactors that enable the next step in the evolution of the Candu family of heavy-water-moderated fuel-channel reactors. These technologies have been combined in the design for the Advanced Candu Reactor TM1 (ACRTM), AECL's next generation Candu power plant. The ACR design builds extensively on the existing Candu experience base, but includes innovations, in design and in delivery technology, that provide very substantial reductions in capital cost and in project schedules. In this paper, main features of next generation design and delivery are summarized, to provide the background basis for the cost and schedule reductions that have been achieved. In particular the paper outlines the impact of the innovative design steps for ACR: - Selection of slightly enriched fuel bundle design; - Use of light water coolant in place of traditional Candu heavy water coolant; - Compact core design with unique reactor physics benefits; - Optimized coolant and turbine system conditions. In addition to the direct cost benefits arising from efficiency improvement, and from the reduction in heavy water, the next generation Candu configuration results in numerous additional indirect cost benefits, including: - Reduction in number and complexity of reactivity mechanisms; - Reduction in number of heavy water auxiliary systems; - Simplification in heat transport and its support systems; - Simplified human-machine interface. The paper also describes the ACR approach to design for constructability. The application of module assembly and open-top construction techniques, based on Candu and other worldwide experience, has been proven to generate savings in both schedule durations and overall project cost, by reducing premium on-site activities, and by improving efficiency of system and subsystem assembly. AECL's up-to-date experience in the use of 3-D CADDS and related engineering tools has also been proven to reduce both engineering and

  4. Exome-wide DNA capture and next generation sequencing in domestic and wild species

    Directory of Open Access Journals (Sweden)

    Ng Sarah B

    2011-07-01

    Full Text Available Abstract Background Gene-targeted and genome-wide markers are crucial to advance evolutionary biology, agriculture, and biodiversity conservation by improving our understanding of genetic processes underlying adaptation and speciation. Unfortunately, for eukaryotic species with large genomes it remains costly to obtain genome sequences and to develop genome resources such as genome-wide SNPs. A method is needed to allow gene-targeted, next-generation sequencing that is flexible enough to include any gene or number of genes, unlike transcriptome sequencing. Such a method would allow sequencing of many individuals, avoiding ascertainment bias in subsequent population genetic analyses. We demonstrate the usefulness of a recent technology, exon capture, for genome-wide, gene-targeted marker discovery in species with no genome resources. We use coding gene sequences from the domestic cow genome sequence (Bos taurus to capture (enrich for, and subsequently sequence, thousands of exons of B. taurus, B. indicus, and Bison bison (wild bison. Our capture array has probes for 16,131 exons in 2,570 genes, including 203 candidate genes with known function and of interest for their association with disease and other fitness traits. Results We successfully sequenced and mapped exon sequences from across the 29 autosomes and X chromosome in the B. taurus genome sequence. Exon capture and high-throughput sequencing identified thousands of putative SNPs spread evenly across all reference chromosomes, in all three individuals, including hundreds of SNPs in our targeted candidate genes. Conclusions This study shows exon capture can be customized for SNP discovery in many individuals and for non-model species without genomic resources. Our captured exome subset was small enough for affordable next-generation sequencing, and successfully captured exons from a divergent wild species using the domestic cow genome as reference.

  5. Exome-wide DNA capture and next generation sequencing in domestic and wild species.

    Science.gov (United States)

    Cosart, Ted; Beja-Pereira, Albano; Chen, Shanyuan; Ng, Sarah B; Shendure, Jay; Luikart, Gordon

    2011-07-05

    Gene-targeted and genome-wide markers are crucial to advance evolutionary biology, agriculture, and biodiversity conservation by improving our understanding of genetic processes underlying adaptation and speciation. Unfortunately, for eukaryotic species with large genomes it remains costly to obtain genome sequences and to develop genome resources such as genome-wide SNPs. A method is needed to allow gene-targeted, next-generation sequencing that is flexible enough to include any gene or number of genes, unlike transcriptome sequencing. Such a method would allow sequencing of many individuals, avoiding ascertainment bias in subsequent population genetic analyses.We demonstrate the usefulness of a recent technology, exon capture, for genome-wide, gene-targeted marker discovery in species with no genome resources. We use coding gene sequences from the domestic cow genome sequence (Bos taurus) to capture (enrich for), and subsequently sequence, thousands of exons of B. taurus, B. indicus, and Bison bison (wild bison). Our capture array has probes for 16,131 exons in 2,570 genes, including 203 candidate genes with known function and of interest for their association with disease and other fitness traits. We successfully sequenced and mapped exon sequences from across the 29 autosomes and X chromosome in the B. taurus genome sequence. Exon capture and high-throughput sequencing identified thousands of putative SNPs spread evenly across all reference chromosomes, in all three individuals, including hundreds of SNPs in our targeted candidate genes. This study shows exon capture can be customized for SNP discovery in many individuals and for non-model species without genomic resources. Our captured exome subset was small enough for affordable next-generation sequencing, and successfully captured exons from a divergent wild species using the domestic cow genome as reference.

  6. An Operations Concept for the Next Generation VLA

    Science.gov (United States)

    Kepley, Amanda; McKinnon, Mark; Selina, Rob; Murphy, Eric Joseph; ngVLA project

    2018-01-01

    This poster presents an operations plan for the next generation VLA (ngVLA), which is a proposed 214 element interferometer operating from ~1-115GHz, located in the southwestern United States. The operations requirements for this instrument are driven by the large number of antennas spread out over a multi-state area and a cap on the operations budget of 3 times that of the current VLA. These constraints require that the maintenance is a continuous process and that individual antennas are self-sufficient, making flexible subarrays crucial. The ngVLA will produce science ready data products for its users, building on the pioneering work being currently done at ALMA and the JVLA. Finally, the ngVLA will adopt a user support model similar to those at other large facilities (ALMA, HST, JWST, etc).

  7. Next-Generation Navigational Infrastructure and the ATLAS Event Store

    CERN Document Server

    van Gemmeren, P; The ATLAS collaboration; Nowak, M

    2014-01-01

    The ATLAS event store employs a persistence framework with extensive navigational capabilities. These include real-time back navigation to upstream processing stages, externalizable data object references, navigation from any data object to any other both within a single file and across files, and more. The 2013-2014 shutdown of the Large Hadron Collider provides an opportunity to enhance this infrastructure in several ways that both extend these capabilities and allow the collaboration to better exploit emerging computing platforms. Enhancements include redesign with efficient file merging in mind, content-based indices in optimized reference types, and support for forward references. The latter provide the potential to construct valid references to data before those data are written, a capability that is useful in a variety of multithreading, multiprocessing, distributed processing, and deferred processing scenarios. This paper describes the architecture and design of the next generation of ATLAS navigation...

  8. Next-Generation Navigational Infrastructure and the ATLAS Event Store

    CERN Document Server

    van Gemmeren, P; The ATLAS collaboration; Nowak, M

    2013-01-01

    The ATLAS event store employs a persistence framework with extensive navigational capabilities. These include real-time back navigation to upstream processing stages, externalizable data object references, navigation from any data object to any other both within a single file and across files, and more. The 2013-2014 shutdown of the Large Hadron Collider provides an opportunity to enhance this infrastructure in several ways that both extend these capabilities and allow the collaboration to better exploit emerging computing platforms. Enhancements include redesign with efficient file merging in mind, content-based indices in optimized reference types, and support for forward references. The latter provide the potential to construct valid references to data before those data are written, a capability that is useful in a variety of multithreading, multiprocessing, distributed processing, and deferred processing scenarios. This paper describes the architecture and design of the next generation of ATLAS navigation...

  9. Advanced Material Strategies for Next-Generation Additive Manufacturing

    Science.gov (United States)

    Chang, Jinke; He, Jiankang; Zhou, Wenxing; Lei, Qi; Li, Xiao; Li, Dichen

    2018-01-01

    Additive manufacturing (AM) has drawn tremendous attention in various fields. In recent years, great efforts have been made to develop novel additive manufacturing processes such as micro-/nano-scale 3D printing, bioprinting, and 4D printing for the fabrication of complex 3D structures with high resolution, living components, and multimaterials. The development of advanced functional materials is important for the implementation of these novel additive manufacturing processes. Here, a state-of-the-art review on advanced material strategies for novel additive manufacturing processes is provided, mainly including conductive materials, biomaterials, and smart materials. The advantages, limitations, and future perspectives of these materials for additive manufacturing are discussed. It is believed that the innovations of material strategies in parallel with the evolution of additive manufacturing processes will provide numerous possibilities for the fabrication of complex smart constructs with multiple functions, which will significantly widen the application fields of next-generation additive manufacturing. PMID:29361754

  10. Major NSSS design features of the Korean next generation reactor

    International Nuclear Information System (INIS)

    Kim, Insk; Kim, Dong-Su

    1999-01-01

    In order to meet national needs for increasing electric power generation in the Republic of Korea in the 2000s, the Korean nuclear development group (KNDG) is developing a standardized evolutionary advanced light water reactor (ALWR), the Korean Next Generation Reactor (KNGR). It is an advanced version of the successful Korean Standard Nuclear Power Plant (KSNP) design, which meets utility needs for safety enhancement, performance improvement and ease of operation and maintenance. The KNGR design starts fro the proven design concept of the currently operating KSNPs with uprated power and advanced design features required by the utility. The KNGR design is currently in the final stage of the basic design, and the paper describes the major nuclear steam supply system (NSSS) design features of the KNGR together with introduction of the KNGR development program. (author)

  11. A Next Generation Light Source Facility at LBNL

    International Nuclear Information System (INIS)

    Corlett, J.N.; Austin, B.; Baptiste, K.M.; Byrd, J.M.; Denes, P.; Donahue, R.; Doolittle, L.; Falcone, R.W.; Filippetto, D.; Fournier, S.; Li, D.; Padmore, H.A.; Papadopoulos, C.; Pappas, C.; Penn, G.; Placidi, M.; Prestemon, S.; Prosnitz, D.; Qiang, J.; Ratti, A.; Reinsch, M.; Sannibale, F.; Schlueter, R.; Schoenlein, R.W.; Staples, J.W.; Vecchione, T.; Venturini, M.; Wells, R.; Wilcox, R.; Wurtele, J.; Charman, A.; Kur, E.; Zholents, A.A.

    2011-01-01

    The Next Generation Light Source (NGLS) is a design concept, under development at LBNL, for a multibeamline soft x-ray FEL array powered by a ∼2 GeV superconducting linear accelerator, operating with a 1 MHz bunch repetition rate. The CW superconducting linear accelerator is supplied by a high-brightness, high-repetition-rate photocathode electron gun. Electron bunches are distributed from the linac to the array of independently configurable FEL beamlines with nominal bunch rates up to 100 kHz in each FEL, and with even pulse spacing. Individual FELs may be configured for EEHG, HGHG, SASE, or oscillator mode of operation, and will produce high peak and average brightness x-rays with a flexible pulse format, with pulse durations ranging from sub-femtoseconds to hundreds of femtoseconds.

  12. Implementation of Targeted Next Generation Sequencing in Clinical Diagnostics

    DEFF Research Database (Denmark)

    Larsen, Martin Jakob; Burton, Mark; Thomassen, Mads

    Accurate mutation detection is essential in clinical genetic diagnostics of monogenic hereditary diseases. Targeted next generation sequencing (NGS) provides a promising and cost-effective alternative to Sanger sequencing and MLPA analysis currently used in most diagnostic laboratories. One...... of mutation positive controls previously characterized by Sanger/MLPA analysis. Agilent SureSelect Target-Enrichment kits were used for capturing a set of genes associated with hereditary breast and ovarian cancer syndrome and a compilation of genes involved in multiple rare single gene disorders......, respectively. For diagnostics, the sequencing coverage is essential, wherefore a minimum coverage of 30x per nucleotide in the coding regions was used as our primary quality criterion. For the majority of the included genes, we obtained adequate gene coverage, in which we were able to detect 100% of the known...

  13. Application of Next-generation Sequencing in Clinical Molecular Diagnostics

    Directory of Open Access Journals (Sweden)

    Morteza Seifi

    2017-05-01

    Full Text Available ABSTRACT Next-generation sequencing (NGS is the catch all terms that used to explain several different modern sequencing technologies which let us to sequence nucleic acids much more rapidly and cheaply than the formerly used Sanger sequencing, and as such have revolutionized the study of molecular biology and genomics with excellent resolution and accuracy. Over the past years, many academic companies and institutions have continued technological advances to expand NGS applications from research to the clinic. In this review, the performance and technical features of current NGS platforms were described. Furthermore, advances in the applying of NGS technologies towards the progress of clinical molecular diagnostics were emphasized. General advantages and disadvantages of each sequencing system are summarized and compared to guide the selection of NGS platforms for specific research aims.

  14. Next generation platforms for high-throughput bio-dosimetry

    International Nuclear Information System (INIS)

    Repin, Mikhail; Turner, Helen C.; Garty, Guy; Brenner, David J.

    2014-01-01

    Here the general concept of the combined use of plates and tubes in racks compatible with the American National Standards Institute/the Society for Laboratory Automation and Screening microplate formats as the next generation platforms for increasing the throughput of bio-dosimetry assays was described. These platforms can be used at different stages of bio-dosimetry assays starting from blood collection into micro-tubes organised in standardised racks and ending with the cytogenetic analysis of samples in standardised multi-well and multichannel plates. Robotically friendly platforms can be used for different bio-dosimetry assays in minimally equipped laboratories and on cost-effective automated universal biotech systems. (authors)

  15. Requirements for the next generation of nuclear databases and services

    Energy Technology Data Exchange (ETDEWEB)

    Pronyaev, Vladimir; Zerkin, Viktor; Muir, Douglas [International Atomic Energy Agency, Nuclear Data Section, Vienna (Austria); Winchell, David; Arcilla, Ramon [Brookhaven National Laboratory, National Nuclear Data Center, Upton, NY (United States)

    2002-08-01

    The use of relational database technology and general requirements for the next generation of nuclear databases and services are discussed. These requirements take into account an increased number of co-operating data centres working on diverse hardware and software platforms and users with different data-access capabilities. It is argued that the introduction of programming standards will allow the development of nuclear databases and data retrieval tools in a heterogeneous hardware and software environment. The functionality of this approach was tested with full-scale nuclear databases installed on different platforms having different operating and database management systems. User access through local network, internet, or CD-ROM has been investigated. (author)

  16. Metrology/viewing system for next generation fusion reactors

    International Nuclear Information System (INIS)

    Spampinato, P.T.; Barry, R.E.; Chesser, J.B.; Menon, M.M.; Dagher, M.A.

    1997-01-01

    Next generation fusion reactors require accurate measuring systems to verify sub-millimeter alignment of plasma-facing components in the reactor vessel. A metrology system capable of achieving such accuracy must be compatible with the vessel environment of high gamma radiation, high vacuum, elevated temperature, and magnetic field. This environment requires that the system must be remotely deployed. A coherent, frequency modulated laser radar system is being integrated with a remotely operated deployment system to meet these requirements. The metrology/viewing system consists of a compact laser transceiver optics module which is linked through fiber optics to the laser source and imaging units that are located outside of the harsh environment. The deployment mechanism is a telescopic-mast positioning system. This paper identifies the requirements for the International Thermonuclear Experimental Reactor metrology and viewing system, and describes a remotely operated precision ranging and surface mapping system

  17. Methodology on the sparger development for Korean next generation reactor

    Energy Technology Data Exchange (ETDEWEB)

    Kim, Hwan Yeol; Hwang, Y.D.; Kang, H.S.; Cho, B.H.; Park, J.K

    1999-06-01

    In case of an accident, the safety depressurization system of Korean Next Generation Reactor (KNGR) efficiently depressurize the reactor pressure by directly discharge steam of high pressure and temperature from the pressurizer into the in-containment refuelling water storage tank (IRWST) through spargers. This report was generated for the purpose of developing the sparger of KNGR. This report presents the methodology on application of ABB-Atom. Many thermal hydraulic parameters affecting the maximum bubble could pressure were obtained and the maximum bubble cloud pressure transient curve so called forcing function of KNGR was suggested and design inputs for IRWST (bubble cloud radius vs. time, bubble cloud velocity vs. time, bubble cloudacceleration vs. time, etc.) were generated by the analytic using Rayleigh-Plesset equation. (author). 17 refs., 6 tabs., 27 figs.

  18. Prioritizing Signaling Information Transmission in Next Generation Networks

    Directory of Open Access Journals (Sweden)

    Jasmina Baraković

    2011-01-01

    Full Text Available Next generation transport network is characterized by the use of in-band signaling, where Internet Protocol (IP packets carrying signaling or media information are mixed in transmission. Since transport resources are limited, when any segment of access or core network is congested, IP packets carrying signaling information may be discarded. As a consequence, it may be impossible to implement reachability and quality of service (QoS. Since present approaches are insufficient to completely address this problem, a novel approach is proposed, which is based on prioritizing signaling information transmission. To proof the concept, a simulation study was performed using Network Simulator version 2 (ns-2 and independently developed Session Initiation Protocol (SIP module. The obtained results were statistically processed using Statistical Package for the Social Sciences (SPSS version 15.0. Summarizing our research results, several issues are identified for future work.

  19. Next generation sequencing and its applications in forensic genetics

    DEFF Research Database (Denmark)

    Børsting, Claus; Morling, Niels

    2015-01-01

    articles and presentations at conferences with forensic aspects of NGS. These contributions have demonstrated that NGS offers new possibilities for forensic genetic case work. More information may be obtained from unique samples in a single experiment by analyzing combinations of markers (STRs, SNPs......It has been almost a decade since the first next generation sequencing (NGS) technologies emerged and quickly changed the way genetic research is conducted. Today, full genomes are mapped and published almost weekly and with ever increasing speed and decreasing costs. NGS methods and platforms have...... matured during the last 10 years, and the quality of the sequences has reached a level where NGS is used in clinical diagnostics of humans. Forensic genetic laboratories have also explored NGS technologies and especially in the last year, there has been a small explosion in the number of scientific...

  20. Development of next-generation light water reactor

    International Nuclear Information System (INIS)

    Ishibashi, Fumihiko; Yasuoka, Makoto

    2010-01-01

    The Next-Generation Light Water Reactor Development Program, a national project in Japan, was inaugurated in April 2008. The primary objective of this program is to meet the need for the replacement of existing nuclear power plants in Japan after 2030. With the aim of setting a global standard design, the reactor to be developed offers greatly improved safety, reliability, and economic efficiency through several innovative technologies, including a reactor core system with uranium enrichment of 5 to 10%, a seismic isolation system, long-life materials, advanced water chemistry, innovative construction techniques, optimized passive and active safety systems, innovative digital technologies, and so on. In the first three years, a plant design concept with these innovative features is to be established and the effectiveness of the program will be reevaluated. The major part of the program will be completed in 2015. Toshiba is actively engaged in both design studies and technology development as a founding member of this program. (author)

  1. Next generation multi-particle event generators for the MSSM

    International Nuclear Information System (INIS)

    Reuter, J.; Kilian, W.; Hagiwara, K.; Krauss, F.; Schumann, S.; Rainwater, D.

    2005-12-01

    We present a next generation of multi-particle Monte Carlo (MC) Event generators for LHC and ILC for the MSSM, namely the three program packages Madgraph/MadEvent, WHiZard/O'Mega and Sherpa/Amegic++. The interesting but difficult phenomenology of supersymmetric models at the upcoming colliders demands a corresponding complexity and maturity from simulation tools. This includes multi-particle final states, reducible and irreducible backgrounds, spin correlations, real emission of photons and gluons, etc., which are incorporated in the programs presented here. The framework of a model with such a huge particle content and as complicated as the MSSM makes strenuous tests and comparison of codes inevitable. Various tests show agreement among the three different programs; the tables of cross sections produced in these tests may serve as a future reference for other codes. Furthermore, first MSSM physics analyses performed with these programs are presented here. (orig.)

  2. Reducing Risk for the Next Generation Nuclear Plant

    Energy Technology Data Exchange (ETDEWEB)

    John M. Beck II; Harold J. Heydt; Emmanuel O. Opare; Kyle B. Oswald

    2010-07-01

    The Next Generation Nuclear Plant (NGNP) Project, managed by the Idaho National Laboratory (INL), is directed by the Energy Policy Act of 2005, to research, develop, design, construct, and operate a prototype forth generation nuclear reactor to meet the needs of the 21st Century. As with all large projects developing and deploying new technologies, the NGNP has numerous risks that need to be identified, tracked, mitigated, and reduced in order for successful project completion. A Risk Management Plan (RMP) was created to outline the process the INL is using to manage the risks and reduction strategies for the NGNP Project. Integral to the RMP is the development and use of a Risk Management System (RMS). The RMS is a tool that supports management and monitoring of the project risks. The RMS does not only contain a risk register, but other functionality that allows decision makers, engineering staff, and technology researchers to review and monitor the risks as the project matures.

  3. Next-generation navigational infrastructure and the ATLAS event store

    International Nuclear Information System (INIS)

    Gemmeren, P van; Malon, D; Nowak, M

    2014-01-01

    The ATLAS event store employs a persistence framework with extensive navigational capabilities. These include real-time back navigation to upstream processing stages, externalizable data object references, navigation from any data object to any other both within a single file and across files, and more. The 2013-2014 shutdown of the Large Hadron Collider provides an opportunity to enhance this infrastructure in several ways that both extend these capabilities and allow the collaboration to better exploit emerging computing platforms. Enhancements include redesign with efficient file merging in mind, content-based indices in optimized reference types, and support for forward references. The latter provide the potential to construct valid references to data before those data are written, a capability that is useful in a variety of multithreading, multiprocessing, distributed processing, and deferred processing scenarios. This paper describes the architecture and design of the next generation of ATLAS navigational infrastructure.

  4. The Next Generation ARC Middleware and ATLAS Computing Model

    CERN Document Server

    Filipcic, A; The ATLAS collaboration; Smirnova, O; Konstantinov, A; Karpenko, D

    2012-01-01

    The distributed NDGF Tier-1 and associated Nordugrid clusters are well integrated into the ATLAS computing model but follow a slightly different paradigm than other ATLAS resources. The current strategy does not divide the sites as in the commonly used hierarchical model, but rather treats them as a single storage endpoint and a pool of distributed computing nodes. The next generation ARC middleware with its several new technologies provides new possibilities in development of the ATLAS computing model, such as pilot jobs with pre-cached input files, automatic job migration between the sites, integration of remote sites without connected storage elements, and automatic brokering for jobs with non-standard resource requirements. ARC's data transfer model provides an automatic way for the computing sites to participate in ATLAS' global task management system without requiring centralised brokering or data transfer services. The powerful API combined with Python and Java bindings can easily be used to build new ...

  5. Deep learning—Accelerating Next Generation Performance Analysis Systems?

    Directory of Open Access Journals (Sweden)

    Heike Brock

    2018-02-01

    Full Text Available Deep neural network architectures show superior performance in recognition and prediction tasks of the image, speech and natural language domains. The success of such multi-layered networks encourages their implementation in further application scenarios as the retrieval of relevant motion information for performance enhancement in sports. However, to date deep learning is only seldom applied to activity recognition problems of the human motion domain. Therefore, its use for sports data analysis might remain abstract to many practitioners. This paper provides a survey on recent works in the field of high-performance motion data and examines relevant technologies for subsequent deployment in real training systems. In particular, it discusses aspects of data acquisition, processing and network modeling. Analysis suggests the advantage of deep neural networks under difficult and noisy data conditions. However, further research is necessary to confirm the benefit of deep learning for next generation performance analysis systems.

  6. Population genomics of marine fishes: next generation prospects and challenges

    DEFF Research Database (Denmark)

    Hansen, Jakob Hemmer; Therkildsen, Nina Overgaard; Pujolar, J.M.

    2014-01-01

    Over the past few years, technological advances have facilitated giant leaps forward in our ability to generate genome-wide molecular data, offering exciting opportunities for gaining new insights into the ecology and evolution of species where genomic information is still limited. Marine fishes...... time scales, identifying genomic signatures associated with population divergence under gene flow, and determining the genetic basis of phenotypic traits. We also consider future challenges pertaining to the implementation of genome-wide coverage through next-generation sequencing and genotyping...... methods in marine fishes. Complications associated with fast decay of linkage disequilibrium, as expected for species with large effective population sizes, and the possibility that adaptation is associated with both soft selective sweeps and polygenic selection, leaving complex genomic signatures...

  7. NREL-Prime Next-Generation Drivetrain Dynamometer Test Report

    Energy Technology Data Exchange (ETDEWEB)

    Keller, Jonathan [National Renewable Energy Lab. (NREL), Golden, CO (United States); Erdman, Bill [Cinch, Inc., Moraga, CA (United States); Blodgett, Douglas [DNV KEMA Renewables, Burlington, VT (United States); Halse, Christopher [Romax Technology, Boulder, CO (United States)

    2016-08-01

    Advances in wind turbine drivetrain technologies are necessary to improve reliability and reduce the cost of energy for land-based and offshore wind turbines. The NREL-Prime Next-Generation Drivetrain team developed a geared, medium-speed drivetrain that is lighter, more reliable and more efficient than existing designs. One of the objectives of Phase II of the project was to complete the detailed design, fabrication, and dynamometer testing of a 750 kilowatt (kW) drivetrain that includes the key gearbox innovations designed by Romax Technology and power converter innovations designed by DNV Kema Renewables. The purpose of this document is to summarize these tests completed in NREL's National Wind Technology Center 2.5 megawatt (MW) dynamometer.

  8. Executing Medical Guidelines on the Web: Towards Next Generation Healthcare

    Science.gov (United States)

    Argüello, M.; Des, J.; Fernandez-Prieto, M. J.; Perez, R.; Paniagua, H.

    There is still a lack of full integration between current Electronic Health Records (EHRs) and medical guidelines that encapsulate evidence-based medicine. Thus, general practitioners (GPs) and specialised physicians still have to read document-based medical guidelines and decide among various options for managing common non-life-threatening conditions where the selection of the most appropriate therapeutic option for each individual patient can be a difficult task. This paper presents a simulation framework and computational test-bed, called V.A.F. Framework, for supporting simulations of clinical situations that boosted the integration between Health Level Seven (HL7) and Semantic Web technologies (OWL, SWRL, and OWL-S) to achieve content layer interoperability between online clinical cases and medical guidelines, and therefore, it proves that higher integration between EHRs and evidence-based medicine can be accomplished which could lead to a next generation of healthcare systems that provide more support to physicians and increase patients' safety.

  9. Advanced Material Strategies for Next-Generation Additive Manufacturing.

    Science.gov (United States)

    Chang, Jinke; He, Jiankang; Mao, Mao; Zhou, Wenxing; Lei, Qi; Li, Xiao; Li, Dichen; Chua, Chee-Kai; Zhao, Xin

    2018-01-22

    Additive manufacturing (AM) has drawn tremendous attention in various fields. In recent years, great efforts have been made to develop novel additive manufacturing processes such as micro-/nano-scale 3D printing, bioprinting, and 4D printing for the fabrication of complex 3D structures with high resolution, living components, and multimaterials. The development of advanced functional materials is important for the implementation of these novel additive manufacturing processes. Here, a state-of-the-art review on advanced material strategies for novel additive manufacturing processes is provided, mainly including conductive materials, biomaterials, and smart materials. The advantages, limitations, and future perspectives of these materials for additive manufacturing are discussed. It is believed that the innovations of material strategies in parallel with the evolution of additive manufacturing processes will provide numerous possibilities for the fabrication of complex smart constructs with multiple functions, which will significantly widen the application fields of next-generation additive manufacturing.

  10. Advanced Material Strategies for Next-Generation Additive Manufacturing

    Directory of Open Access Journals (Sweden)

    Jinke Chang

    2018-01-01

    Full Text Available Additive manufacturing (AM has drawn tremendous attention in various fields. In recent years, great efforts have been made to develop novel additive manufacturing processes such as micro-/nano-scale 3D printing, bioprinting, and 4D printing for the fabrication of complex 3D structures with high resolution, living components, and multimaterials. The development of advanced functional materials is important for the implementation of these novel additive manufacturing processes. Here, a state-of-the-art review on advanced material strategies for novel additive manufacturing processes is provided, mainly including conductive materials, biomaterials, and smart materials. The advantages, limitations, and future perspectives of these materials for additive manufacturing are discussed. It is believed that the innovations of material strategies in parallel with the evolution of additive manufacturing processes will provide numerous possibilities for the fabrication of complex smart constructs with multiple functions, which will significantly widen the application fields of next-generation additive manufacturing.

  11. Microbial production of next-generation stevia sweeteners

    DEFF Research Database (Denmark)

    Olsson, Kim; Carlsen, Simon; Semmler, Angelika

    2016-01-01

    BACKGROUND: The glucosyltransferase UGT76G1 from Stevia rebaudiana is a chameleon enzyme in the targeted biosynthesis of the next-generation premium stevia sweeteners, rebaudioside D (Reb D) and rebaudioside M (Reb M). These steviol glucosides carry five and six glucose units, respectively......, and have low sweetness thresholds, high maximum sweet intensities and exhibit a greatly reduced lingering bitter taste compared to stevioside and rebaudioside A, the most abundant steviol glucosides in the leaves of Stevia rebaudiana. RESULTS: In the metabolic glycosylation grid leading to production....... This screen made it possible to identify variants, such as UGT76G1Thr146Gly and UGT76G1His155Leu, which diminished accumulation of unwanted side-products and gave increased specific accumulation of the desired Reb D or Reb M sweeteners. This improvement in a key enzyme of the Stevia sweetener biosynthesis...

  12. Next Generation Agricultural System Data, Models and Knowledge Products: Introduction

    Science.gov (United States)

    Antle, John M.; Jones, James W.; Rosenzweig, Cynthia E.

    2016-01-01

    Agricultural system models have become important tools to provide predictive and assessment capability to a growing array of decision-makers in the private and public sectors. Despite ongoing research and model improvements, many of the agricultural models today are direct descendants of research investments initially made 30-40 years ago, and many of the major advances in data, information and communication technology (ICT) of the past decade have not been fully exploited. The purpose of this Special Issue of Agricultural Systems is to lay the foundation for the next generation of agricultural systems data, models and knowledge products. The Special Issue is based on a 'NextGen' study led by the Agricultural Model Intercomparison and Improvement Project (AgMIP) with support from the Bill and Melinda Gates Foundation.

  13. Satellite communications for the next generation telecommunication services and networks

    Science.gov (United States)

    Chitre, D. M.

    1991-01-01

    Satellite communications can play an important role in provisioning the next-generation telecommunication services and networks, provided the protocols specifying these services and networks are satellite-compatible and the satellite subnetworks, consisting of earth stations interconnected by the processor and the switch on board the satellite, interwork effectively with the terrestrial networks. The specific parameters and procedures of frame relay and broadband integrated services digital network (B-ISDN) protocols which are impacted by a satellite delay. Congestion and resource management functions for frame relay and B-ISDN are discussed in detail, describing the division of these functions between earth stations and on board the satellite. Specific onboard and ground functions are identified as potential candidates for their implementation via neural network technology.

  14. Potential of OFDM for next generation optical access

    Science.gov (United States)

    Fritzsche, Daniel; Weis, Erik; Breuer, Dirk

    2011-01-01

    This paper shows the requirements for next generation optical access (NGOA) networks and analyzes the potential of OFDM (orthogonal frequency division multiplexing) for the use in such network scenarios. First, we show the motivation for NGOA systems based on the future requirements on FTTH access systems and list the advantages of OFDM in such scenarios. In the next part, the basics of OFDM and different methods to generate and detect optical OFDM signals are explained and analyzed. At the transmitter side the options include intensity modulation and the more advanced field modulation of the optical OFDM signal. At the receiver there is the choice between direct detection and coherent detection. As the result of this discussion we show our vision of the future use of OFDM in optical access networks.

  15. Production of the next-generation library virtual tour

    Science.gov (United States)

    Duncan, James M.; Roth, Linda K.

    2001-01-01

    While many libraries offer overviews of their services through their Websites, only a small number of health sciences libraries provide Web-based virtual tours. These tours typically feature photographs of major service areas along with textual descriptions. This article describes the process for planning, producing, and implementing a next-generation virtual tour in which a variety of media elements are integrated: photographic images, 360-degree “virtual reality” views, textual descriptions, and contextual floor plans. Hardware and software tools used in the project are detailed, along with a production timeline and budget, tips for streamlining the process, and techniques for improving production. This paper is intended as a starting guide for other libraries considering an investment in such a project. PMID:11837254

  16. Next-generation TCAP hydrogen isotope separation process

    International Nuclear Information System (INIS)

    Heung, L. K.; Sessions, H. T.; Poore, A. S.; Jacobs, W. D.; Williams, C. S.

    2008-01-01

    A thermal cycling absorption process (TCAP) for hydrogen isotope separation has been in operation at Savannah River Site since 1994. The process uses a hot/cold nitrogen system to cycle the temperature of the separation column. The hot/cold nitrogen system requires the use of large compressors, heat exchanges, valves and piping that is bulky and maintenance intensive. A new compact thermal cycling (CTC) design has recently been developed. This new design uses liquid nitrogen tubes and electric heaters to heat and cool the column directly so that the bulky hot/cold nitrogen system can be eliminated. This CTC design is simple and is easy to implement, and will be the next generation TCAP system at SRS. A twelve-meter column has been fabricated and installed in the laboratory to demonstrate its performance. The design of the system and its test results to date is discussed. (authors)

  17. A Next Generation Light Source Facility at LBNL

    Energy Technology Data Exchange (ETDEWEB)

    Corlett, J.N.; Austin, B.; Baptiste, K.M.; Byrd, J.M.; Denes, P.; Donahue, R.; Doolittle, L.; Falcone, R.W.; Filippetto, D.; Fournier, S.; Li, D.; Padmore, H.A.; Papadopoulos, C.; Pappas, C.; Penn, G.; Placidi, M.; Prestemon, S.; Prosnitz, D.; Qiang, J.; Ratti, A.; Reinsch, M.; Sannibale, F.; Schlueter, R.; Schoenlein, R.W.; Staples, J.W.; Vecchione, T.; Venturini, M.; Wells, R.; Wilcox, R.; Wurtele, J.; Charman, A.; Kur, E.; Zholents, A.A.

    2011-03-23

    The Next Generation Light Source (NGLS) is a design concept, under development at LBNL, for a multibeamline soft x-ray FEL array powered by a ~;;2 GeV superconducting linear accelerator, operating with a 1 MHz bunch repetition rate. The CW superconducting linear accelerator is supplied by a high-brightness, highrepetition- rate photocathode electron gun. Electron bunches are distributed from the linac to the array of independently configurable FEL beamlines with nominal bunch rates up to 100 kHz in each FEL, and with even pulse spacing. Individual FELs may be configured for EEHG, HGHG, SASE, or oscillator mode of operation, and will produce high peak and average brightness x-rays with a flexible pulse format, with pulse durations ranging from sub-femtoseconds to hundreds of femtoseconds.

  18. Design optimization of general arrangement in Korean next generation reactor

    International Nuclear Information System (INIS)

    Kim, S. H.; Jung, D. W.; Choi, Y. B.; Cho, S. J.

    1999-01-01

    In order to optimize the general arrangement(GA) of Korean Next Generation Reactor (KNGR), field opinions in domestic nuclear power plants have been collected, and the bench marking on UCN No.1,2 which were estimated to be the most excellent in view of operability and maintenance has been accomplished. Through this work, design optimization items for GA were reviewed. Major items to be selected for optimization are summarized as follows; 'Expanding the compound building function and the mezzanine floor concept in the auxiliary building', 'Including the diesel generator building to the auxiliary building', 'Change of the equipment removal method in the auxiliary building'. With these GA design optimization, the auxiliary building boundary will be improved as a complete rectangular type. The power block volume except the changing effect to the single containment structure will be reduced to about 10% in comparison with that of in KNGR phase II

  19. Towards the Next Generation of Space Environment Prediction Capabilities.

    Science.gov (United States)

    Kuznetsova, M. M.

    2015-12-01

    Since its establishment more than 15 years ago, the Community Coordinated Modeling Center (CCMC, http://ccmc.gsfc.nasa.gov) is serving as an assess point to expanding collection of state-of-the-art space environment models and frameworks as well as a hub for collaborative development of next generation space weather forecasting systems. In partnership with model developers and international research and operational communities the CCMC integrates new data streams and models from diverse sources into end-to-end space weather impacts predictive systems, identifies week links in data-model & model-model coupling and leads community efforts to fill those gaps. The presentation will highlight latest developments, progress in CCMC-led community-wide projects on testing, prototyping, and validation of models, forecasting techniques and procedures and outline ideas on accelerating implementation of new capabilities in space weather operations.

  20. Power Electronics for the Next Generation Wind Turbine System

    DEFF Research Database (Denmark)

    Ma, Ke

    generation unit, are becoming crucial in the wind turbine system. The objective of this project is to study the power electronics technology used for the next generation wind turbines. Some emerging challenges as well as potentials like the cost of energy and reliability are going to be addressed. First...... conversion is pushed to multi-MW level with high power density requirement. It has also been revealed that thermal stress in the power semiconductors is closely related to many determining factors in the wind power application like the reliability, cost, power density, etc. therefore it is an important......The wind power generation has been steadily growing both for the total installed capacity and for the individual turbine size. Due to much more significant impacts to the power grid, the power electronics, which can change the behavior of wind turbines from an unregulated power source to an active...

  1. Neurogenetics: advancing the "next-generation" of brain research.

    Science.gov (United States)

    Zoghbi, Huda Y; Warren, Stephen T

    2010-10-21

    There can be little doubt that genetics has transformed our understanding of mechanisms mediating brain disorders. The last two decades have brought tremendous progress in terms of accurate molecular diagnoses and knowledge of the genes and pathways that are involved in a large number of neurological and psychiatric disorders. Likewise, new methods and analytical approaches, including genome array studies and "next-generation" sequencing technologies, are bringing us deeper insights into the subtle complexities of the genetic architecture that determines our risks for these disorders. As we now seek to translate these discoveries back to clinical applications, a major challenge for the field will be in bridging the gap between genes and biology. In this Overview of Neuron's special review issue on neurogenetics, we reflect on progress made over the last two decades and highlight the challenges as well as the exciting opportunities for the future. Copyright © 2010 Elsevier Inc. All rights reserved.

  2. Methodology on the sparger development for Korean next generation reactor

    International Nuclear Information System (INIS)

    Kim, Hwan Yeol; Hwang, Y.D.; Kang, H.S.; Cho, B.H.; Park, J.K.

    1999-06-01

    In case of an accident, the safety depressurization system of Korean Next Generation Reactor (KNGR) efficiently depressurize the reactor pressure by directly discharge steam of high pressure and temperature from the pressurizer into the in-containment refuelling water storage tank (IRWST) through spargers. This report was generated for the purpose of developing the sparger of KNGR. This report presents the methodology on application of ABB-Atom. Many thermal hydraulic parameters affecting the maximum bubble could pressure were obtained and the maximum bubble cloud pressure transient curve so called forcing function of KNGR was suggested and design inputs for IRWST (bubble cloud radius vs. time, bubble cloud velocity vs. time, bubble cloud acceleration vs. time, etc.) were generated by the analytic using Rayleigh-Plesset equation. (author). 17 refs., 6 tabs., 27 figs

  3. Rapid Conditioning for the Next Generation Melting System

    Energy Technology Data Exchange (ETDEWEB)

    Rue, David M. [Gas Technology Institute, Des Plaines, IL (United States)

    2015-06-17

    This report describes work on Rapid Conditioning for the Next Generation Melting System under US Department of Energy Contract DE-FC36-06GO16010. The project lead was the Gas Technology Institute (GTI). Partners included Owens Corning and Johns Manville. Cost share for this project was provided by NYSERDA (the New York State Energy Research and Development Authority), Owens Corning, Johns Manville, Owens Illinois, and the US natural gas industry through GTI’s SMP and UTD programs. The overreaching focus of this project was to study and develop rapid refining approaches for segmented glass manufacturing processes using high-intensity melters such as the submerged combustion melter. The objectives of this project were to 1) test and evaluate the most promising approaches to rapidly condition the homogeneous glass produced from the submerged combustion melter, and 2) to design a pilot-scale NGMS system for fiberglass recycle.

  4. Detection of mobile user location on next generation wireless networks

    DEFF Research Database (Denmark)

    Schou, Saowanee; Olesen, Henning

    2005-01-01

    This paper proposes a novel conceptual mechanism for detecting the location of a mobile user on next generation wireless networks. This mechanism can provide location information of a mobile user at different levels of accuracy, by applying the movement detection mechanism of Mobile IPv6 at both...... macro- and micromobility level. In this scheme, an intradomain mobility management protocol (IDMP) is applied to manage the location of the mobile terminal. The mobile terminal needs two care-of addresses, a global care-of address (GCoA) and a local care-of address (LCoA). The current location...... of a Mobile IPv6 device can be determined by mapping the geographical location information with the two care-of-addresses and the physical address of the access point where the user is connected. Such a mechanism makes location services for mobile entities available on a global IP network. The end-users can...

  5. Multi-Intelligence Analytics for Next Generation Analysts (MIAGA)

    Science.gov (United States)

    Blasch, Erik; Waltz, Ed

    2016-05-01

    Current analysts are inundated with large volumes of data from which extraction, exploitation, and indexing are required. A future need for next-generation analysts is an appropriate balance between machine analytics from raw data and the ability of the user to interact with information through automation. Many quantitative intelligence tools and techniques have been developed which are examined towards matching analyst opportunities with recent technical trends such as big data, access to information, and visualization. The concepts and techniques summarized are derived from discussions with real analysts, documented trends of technical developments, and methods to engage future analysts with multiintelligence services. For example, qualitative techniques should be matched against physical, cognitive, and contextual quantitative analytics for intelligence reporting. Future trends include enabling knowledge search, collaborative situational sharing, and agile support for empirical decision-making and analytical reasoning.

  6. Reducing Risk for the Next Generation Nuclear Plant

    International Nuclear Information System (INIS)

    Beck, John M. II; Heydt, Harold J.; Opare, Emmanuel O.; Oswald, Kyle B.

    2010-01-01

    The Next Generation Nuclear Plant (NGNP) Project, managed by the Idaho National Laboratory (INL), is directed by the Energy Policy Act of 2005, to research, develop, design, construct, and operate a prototype forth generation nuclear reactor to meet the needs of the 21st Century. As with all large projects developing and deploying new technologies, the NGNP has numerous risks that need to be identified, tracked, mitigated, and reduced in order for successful project completion. A Risk Management Plan (RMP) was created to outline the process the INL is using to manage the risks and reduction strategies for the NGNP Project. Integral to the RMP is the development and use of a Risk Management System (RMS). The RMS is a tool that supports management and monitoring of the project risks. The RMS does not only contain a risk register, but other functionality that allows decision makers, engineering staff, and technology researchers to review and monitor the risks as the project matures.

  7. Perspectives of Integrative Cancer Genomics in Next Generation Sequencing Era

    Directory of Open Access Journals (Sweden)

    So Mee Kwon

    2012-06-01

    Full Text Available The explosive development of genomics technologies including microarrays and next generation sequencing (NGS has provided comprehensive maps of cancer genomes, including the expression of mRNAs and microRNAs, DNA copy numbers, sequence variations, and epigenetic changes. These genome-wide profiles of the genetic aberrations could reveal the candidates for diagnostic and/or prognostic biomarkers as well as mechanistic insights into tumor development and progression. Recent efforts to establish the huge cancer genome compendium and integrative omics analyses, so-called "integromics", have extended our understanding on the cancer genome, showing its daunting complexity and heterogeneity. However, the challenges of the structured integration, sharing, and interpretation of the big omics data still remain to be resolved. Here, we review several issues raised in cancer omics data analysis, including NGS, focusing particularly on the study design and analysis strategies. This might be helpful to understand the current trends and strategies of the rapidly evolving cancer genomics research.

  8. Control of Next Generation Aircraft and Wind Turbines

    Science.gov (United States)

    Frost, Susan

    2010-01-01

    The first part of this talk will describe some of the exciting new next generation aircraft that NASA is proposing for the future. These aircraft are being designed to reduce aircraft fuel consumption and environmental impact. Reducing the aircraft weight is one approach that will be used to achieve these goals. A new control framework will be presented that enables lighter, more flexible aircraft to maintain aircraft handling qualities, while preventing the aircraft from exceeding structural load limits. The second part of the talk will give an overview of utility-scale wind turbines and their control. Results of collaboration with Dr. Balas will be presented, including new theory to adaptively control the turbine in the presence of structural modes, with the focus on the application of this theory to a high-fidelity simulation of a wind turbine.

  9. Quantifying population genetic differentiation from next-generation sequencing data

    DEFF Research Database (Denmark)

    Fumagalli, Matteo; Garrett Vieira, Filipe Jorge; Korneliussen, Thorfinn Sand

    2013-01-01

    method for quantifying population genetic differentiation from next-generation sequencing data. In addition, we present a strategy to investigate population structure via Principal Components Analysis. Through extensive simulations, we compare the new method herein proposed to approaches based...... on genotype calling and demonstrate a marked improvement in estimation accuracy for a wide range of conditions. We apply the method to a large-scale genomic data set of domesticated and wild silkworms sequenced at low coverage. We find that we can infer the fine-scale genetic structure of the sampled......Over the last few years, new high-throughput DNA sequencing technologies have dramatically increased speed and reduced sequencing costs. However, the use of these sequencing technologies is often challenged by errors and biases associated with the bioinformatical methods used for analyzing the data...

  10. Engineering microbes for tolerance to next-generation biofuels

    Directory of Open Access Journals (Sweden)

    Dunlop Mary J

    2011-09-01

    Full Text Available Abstract A major challenge when using microorganisms to produce bulk chemicals such as biofuels is that the production targets are often toxic to cells. Many biofuels are known to reduce cell viability through damage to the cell membrane and interference with essential physiological processes. Therefore, cells must trade off biofuel production and survival, reducing potential yields. Recently, there have been several efforts towards engineering strains for biofuel tolerance. Promising methods include engineering biofuel export systems, heat shock proteins, membrane modifications, more general stress responses, and approaches that integrate multiple tolerance strategies. In addition, in situ recovery methods and media supplements can help to ease the burden of end-product toxicity and may be used in combination with genetic approaches. Recent advances in systems and synthetic biology provide a framework for tolerance engineering. This review highlights recent targeted approaches towards improving microbial tolerance to next-generation biofuels with a particular emphasis on strategies that will improve production.

  11. Next Generation Thermal Barrier Coatings for the Gas Turbine Industry

    Science.gov (United States)

    Curry, Nicholas; Markocsan, Nicolaie; Li, Xin-Hai; Tricoire, Aurélien; Dorfman, Mitch

    2011-01-01

    The aim of this study is to develop the next generation of production ready air plasma sprayed thermal barrier coating with a low conductivity and long lifetime. A number of coating architectures were produced using commercially available plasma spray guns. Modifications were made to powder chemistry, including high purity powders, dysprosia stabilized zirconia powders, and powders containing porosity formers. Agglomerated & sintered and homogenized oven spheroidized powder morphologies were used to attain beneficial microstructures. Dual layer coatings were produced using the two powders. Laser flash technique was used to evaluate the thermal conductivity of the coating systems from room temperature to 1200 °C. Tests were performed on as-sprayed samples and samples were heat treated for 100 h at 1150 °C. Thermal conductivity results were correlated to the coating microstructure using image analysis of porosity and cracks. The results show the influence of beneficial porosity on reducing the thermal conductivity of the produced coatings.

  12. Advanced LIGO: the next generation of gravitational wave detectors

    International Nuclear Information System (INIS)

    Harry, Gregory M

    2010-01-01

    The Advanced LIGO gravitational wave detectors are next generation instruments which will replace the existing initial LIGO detectors. They are currently being constructed and installed. Advanced LIGO strain sensitivity is designed to be about a factor 10 better than initial LIGO over a broad band and usable to 10 Hz, in contrast to 40 Hz for initial LIGO. This is expected to allow for detections and significant astrophysics in most categories of gravitational waves. To achieve this sensitivity, all hardware subsystems are being replaced with improvements. Designs and expected performance are presented for the seismic isolation, suspensions, optics and laser subsystems. Possible enhancements to Advanced LIGO, either to resolve problems that may arise and/or to allow for improved performance, are now being researched. Some of these enhancements are discussed along with some potential technology being considered for detectors beyond Advanced LIGO.

  13. Report on the international workshop on next generation linear colliders

    International Nuclear Information System (INIS)

    Ruth, R.D.

    1989-05-01

    Many laboratories around the world have begun vigorous research programs on a next generation linear collider (NLC). However, it has been recognized that the research towards NLC is beyond the capabilities of any one laboratory presently. This workshop was organized to begin a series of workshops that address this problem. Specifically, the main goals of the workshop were to discuss research programs of the various laboratories around the world, to identify common areas of interest in the various NLC designs, and finally to advance these programs by collaboration. The particular topics discussed briefly in this paper are: parameters, rf power, structures, final focus, beam dynamics, damping rings, and instrumentation. 2 refs., 3 figs., 6 tabs

  14. Safety criteria for the next generation of European reactors

    International Nuclear Information System (INIS)

    Dominguez Bautista, M.T.

    1995-01-01

    For the next generation of reactors, European companies operating in the electricity sector have drawn up a document called European Utilities Requirement (EUR), which sets out the requirements to be met by the designers of future reactors. The main objective of these new requirements is to increase the safety in existing reactors, making good use of operating experience available and the technological developments of the last decade. This paper offers an in-depth analysis of the most significant characteristics, describing how the EUR requirements have been prepared and how they are being implemented by the designers. Areas covered are: - Combining deterministic and probabilistic criteria - Automation of control systems - Design extension for severe accidents - Containment design - Emergency plans - Autonomy versus manual operation

  15. Policy Framework for the Next Generation Platform as a Service

    DEFF Research Database (Denmark)

    Kentis, Angelos Mimidis; Ollora Zaballa, Eder; Soler, José

    2018-01-01

    The Platform-as-a-Service (PaaS) model, allows service providers to build and deploy their services following streamlined work-flows. However, platforms deployed through the PaaS model can be very diverse in terms of technologies and involved subsystems (e.g. infrastructure, orchestration). Thus,......-wide and technology-agnostic policies to NGPaaS, by means of abstraction of the underlying platforms and the use of generic interfaces. The paper also presents a specific use case for the proposed framework, which targets network-oriented policies......., the means for deploying and managing a service can significantly vary depending on the deployed platform. To address this issue, this paper proposes a policy-based framework designed for the Next Generation Platform-as-a-Service (NGPaaS). This framework allows service providers to define platform...

  16. GEANT4: simulation for the next generation of HEP experiments

    International Nuclear Information System (INIS)

    Simone, Giani

    1996-01-01

    GEANT4 (RD44) is a world-wide collaboration of scientists aiming to create the detector simulation tool kit necessary for the next generation of HEP experiments. A large variety of requirements also come from heavy ions physics, CP violation physics, cosmic rays physics, medical applications and space science applications. In order to meet such requirements, a large degree of functionality and flexibility has to provided. GEANT4 is exploiting Object Oriented Technology to achieve these goals. The most relevant Object Oriented methodologies have been studied and a large number of tools and libraries have been investigated and evaluated. An overview of the GEANT4 analysis and design model will be given and the main components of the object models discussed. The main functionality of a first prototype will also be described. An overall view of the collaboration's structure and strategy will also be given. (author)

  17. Next-Generation Sequencing and Genome Editing in Plant Virology

    Directory of Open Access Journals (Sweden)

    Ahmed Hadidi

    2016-08-01

    Full Text Available Next-generation sequencing (NGS has been applied to plant virology since 2009. NGS provides highly efficient, rapid, low cost DNA or RNA high-throughput sequencing of the genomes of plant viruses and viroids and of the specific small RNAs generated during the infection process. These small RNAs, which cover frequently the whole genome of the infectious agent, are 21-24 nt long and are known as vsRNAs for viruses and vd-sRNAs for viroids. NGS has been used in a number of studies in plant virology including, but not limited to, discovery of novel viruses and viroids as well as detection and identification of those pathogens already known, analysis of genome diversity and evolution, and study of pathogen epidemiology. The genome engineering editing method, clustered regularly interspaced short palindromic repeats (CRISPR-Cas9 system has been successfully used recently to engineer resistance to DNA geminiviruses (family, Geminiviridae by targeting different viral genome sequences in infected Nicotiana benthamiana or Arabidopsis plants. The DNA viruses targeted include tomato yellow leaf curl virus and merremia mosaic virus (begomovirus; beet curly top virus and beet severe curly top virus (curtovirus; and bean yellow dwarf virus (mastrevirus. The technique has also been used against the RNA viruses zucchini yellow mosaic virus, papaya ringspot virus and turnip mosaic virus (potyvirus and cucumber vein yellowing virus (ipomovirus, family, Potyviridae by targeting the translation initiation genes eIF4E in cucumber or Arabidopsis plants. From these recent advances of major importance, it is expected that NGS and CRISPR-Cas technologies will play a significant role in the very near future in advancing the field of plant virology and connecting it with other related fields of biology.Keywords: Next-generation sequencing, NGS, plant virology, plant viruses, viroids, resistance to plant viruses by CRISPR-Cas9

  18. Graphene Transparent Conductive Electrodes for Next- Generation Microshutter Arrays

    Science.gov (United States)

    Li, Mary; Sultana, Mahmooda; Hess, Larry

    2012-01-01

    Graphene is a single atomic layer of graphite. It is optically transparent and has high electron mobility, and thus has great potential to make transparent conductive electrodes. This invention contributes towards the development of graphene transparent conductive electrodes for next-generation microshutter arrays. The original design for the electrodes of the next generation of microshutters uses indium-tin-oxide (ITO) as the electrode material. ITO is widely used in NASA flight missions. The optical transparency of ITO is limited, and the material is brittle. Also, ITO has been getting more expensive in recent years. The objective of the invention is to develop a graphene transparent conductive electrode that will replace ITO. An exfoliation procedure was developed to make graphene out of graphite crystals. In addition, large areas of single-layer graphene were produced using low-pressure chemical vapor deposition (LPCVD) with high optical transparency. A special graphene transport procedure was developed for transferring graphene from copper substrates to arbitrary substrates. The concept is to grow large-size graphene sheets using the LPCVD system through chemical reaction, transfer the graphene film to a substrate, dope graphene to reduce the sheet resistance, and pattern the film to the dimension of the electrodes in the microshutter array. Graphene transparent conductive electrodes are expected to have a transparency of 97.7%. This covers the electromagnetic spectrum from UV to IR. In comparison, ITO electrodes currently used in microshutter arrays have 85% transparency in mid-IR, and suffer from dramatic transparency drop at a wavelength of near-IR or shorter. Thus, graphene also has potential application as transparent conductive electrodes for Schottky photodiodes in the UV region.

  19. A Framework for the Next Generation of Risk Science

    Science.gov (United States)

    Krewski, Daniel; Andersen, Melvin E.; Paoli, Gregory M.; Chiu, Weihsueh A.; Al-Zoughool, Mustafa; Croteau, Maxine C.; Burgoon, Lyle D.; Cote, Ila

    2014-01-01

    Objectives: In 2011, the U.S. Environmental Protection Agency initiated the NexGen project to develop a new paradigm for the next generation of risk science. Methods: The NexGen framework was built on three cornerstones: the availability of new data on toxicity pathways made possible by fundamental advances in basic biology and toxicological science, the incorporation of a population health perspective that recognizes that most adverse health outcomes involve multiple determinants, and a renewed focus on new risk assessment methodologies designed to better inform risk management decision making. Results: The NexGen framework has three phases. Phase I (objectives) focuses on problem formulation and scoping, taking into account the risk context and the range of available risk management decision-making options. Phase II (risk assessment) seeks to identify critical toxicity pathway perturbations using new toxicity testing tools and technologies, and to better characterize risks and uncertainties using advanced risk assessment methodologies. Phase III (risk management) involves the development of evidence-based population health risk management strategies of a regulatory, economic, advisory, community-based, or technological nature, using sound principles of risk management decision making. Conclusions: Analysis of a series of case study prototypes indicated that many aspects of the NexGen framework are already beginning to be adopted in practice. Citation: Krewski D, Westphal M, Andersen ME, Paoli GM, Chiu WA, Al-Zoughool M, Croteau MC, Burgoon LD, Cote I. 2014. A framework for the next generation of risk science. Environ Health Perspect 122:796–805; http://dx.doi.org/10.1289/ehp.1307260 PMID:24727499

  20. Next generation sequencing reveals the hidden diversity of zooplankton assemblages.

    Directory of Open Access Journals (Sweden)

    Penelope K Lindeque

    Full Text Available BACKGROUND: Zooplankton play an important role in our oceans, in biogeochemical cycling and providing a food source for commercially important fish larvae. However, difficulties in correctly identifying zooplankton hinder our understanding of their roles in marine ecosystem functioning, and can prevent detection of long term changes in their community structure. The advent of massively parallel next generation sequencing technology allows DNA sequence data to be recovered directly from whole community samples. Here we assess the ability of such sequencing to quantify richness and diversity of a mixed zooplankton assemblage from a productive time series site in the Western English Channel. METHODOLOGY/PRINCIPLE FINDINGS: Plankton net hauls (200 µm were taken at the Western Channel Observatory station L4 in September 2010 and January 2011. These samples were analysed by microscopy and metagenetic analysis of the 18S nuclear small subunit ribosomal RNA gene using the 454 pyrosequencing platform. Following quality control a total of 419,041 sequences were obtained for all samples. The sequences clustered into 205 operational taxonomic units using a 97% similarity cut-off. Allocation of taxonomy by comparison with the National Centre for Biotechnology Information database identified 135 OTUs to species level, 11 to genus level and 1 to order, <2.5% of sequences were classified as unknowns. By comparison a skilled microscopic analyst was able to routinely enumerate only 58 taxonomic groups. CONCLUSIONS: Metagenetics reveals a previously hidden taxonomic richness, especially for Copepoda and hard-to-identify meroplankton such as Bivalvia, Gastropoda and Polychaeta. It also reveals rare species and parasites. We conclude that Next Generation Sequencing of 18S amplicons is a powerful tool for elucidating the true diversity and species richness of zooplankton communities. While this approach allows for broad diversity assessments of plankton it may

  1. Targeted next generation sequencing for molecular diagnosis of Usher syndrome.

    Science.gov (United States)

    Aparisi, María J; Aller, Elena; Fuster-García, Carla; García-García, Gema; Rodrigo, Regina; Vázquez-Manrique, Rafael P; Blanco-Kelly, Fiona; Ayuso, Carmen; Roux, Anne-Françoise; Jaijo, Teresa; Millán, José M

    2014-11-18

    Usher syndrome is an autosomal recessive disease that associates sensorineural hearing loss, retinitis pigmentosa and, in some cases, vestibular dysfunction. It is clinically and genetically heterogeneous. To date, 10 genes have been associated with the disease, making its molecular diagnosis based on Sanger sequencing, expensive and time-consuming. Consequently, the aim of the present study was to develop a molecular diagnostics method for Usher syndrome, based on targeted next generation sequencing. A custom HaloPlex panel for Illumina platforms was designed to capture all exons of the 10 known causative Usher syndrome genes (MYO7A, USH1C, CDH23, PCDH15, USH1G, CIB2, USH2A, GPR98, DFNB31 and CLRN1), the two Usher syndrome-related genes (HARS and PDZD7) and the two candidate genes VEZT and MYO15A. A cohort of 44 patients suffering from Usher syndrome was selected for this study. This cohort was divided into two groups: a test group of 11 patients with known mutations and another group of 33 patients with unknown mutations. Forty USH patients were successfully sequenced, 8 USH patients from the test group and 32 patients from the group composed of USH patients without genetic diagnosis. We were able to detect biallelic mutations in one USH gene in 22 out of 32 USH patients (68.75%) and to identify 79.7% of the expected mutated alleles. Fifty-three different mutations were detected. These mutations included 21 missense, 8 nonsense, 9 frameshifts, 9 intronic mutations and 6 large rearrangements. Targeted next generation sequencing allowed us to detect both point mutations and large rearrangements in a single experiment, minimizing the economic cost of the study, increasing the detection ratio of the genetic cause of the disease and improving the genetic diagnosis of Usher syndrome patients.

  2. Towards the next generation of simplified Dark Matter models

    Science.gov (United States)

    Albert, Andreas; Bauer, Martin; Brooke, Jim; Buchmueller, Oliver; Cerdeño, David G.; Citron, Matthew; Davies, Gavin; de Cosa, Annapaola; De Roeck, Albert; De Simone, Andrea; Du Pree, Tristan; Flaecher, Henning; Fairbairn, Malcolm; Ellis, John; Grohsjean, Alexander; Hahn, Kristian; Haisch, Ulrich; Harris, Philip C.; Khoze, Valentin V.; Landsberg, Greg; McCabe, Christopher; Penning, Bjoern; Sanz, Veronica; Schwanenberger, Christian; Scott, Pat; Wardle, Nicholas

    2017-06-01

    This White Paper is an input to the ongoing discussion about the extension and refinement of simplified Dark Matter (DM) models. It is not intended as a comprehensive review of the discussed subjects, but instead summarises ideas and concepts arising from a brainstorming workshop that can be useful when defining the next generation of simplified DM models (SDMM). In this spirit, based on two concrete examples, we show how existing SDMM can be extended to provide a more accurate and comprehensive framework to interpret and characterise collider searches. In the first example we extend the canonical SDMM with a scalar mediator to include mixing with the Higgs boson. We show that this approach not only provides a better description of the underlying kinematic properties that a complete model would possess, but also offers the option of using this more realistic class of scalar mixing models to compare and combine consistently searches based on different experimental signatures. The second example outlines how a new physics signal observed in a visible channel can be connected to DM by extending a simplified model including effective couplings. In the next part of the White Paper we outline other interesting options for SDMM that could be studied in more detail in the future. Finally, we review important aspects of supersymmetric models for DM and use them to propose how to develop more complete SDMMs. This White Paper is a summary of the brainstorming meeting "Next generation of simplified Dark Matter models" that took place at Imperial College, London on May 6, 2016, and corresponding follow-up studies on selected subjects.

  3. Advanced optical components for next-generation photonic networks

    Science.gov (United States)

    Yoo, S. J. B.

    2003-08-01

    Future networks will require very high throughput, carrying dominantly data-centric traffic. The role of Photonic Networks employing all-optical systems will become increasingly important in providing scalable bandwidth, agile reconfigurability, and low-power consumptions in the future. In particular, the self-similar nature of data traffic indicates that packet switching and burst switching will be beneficial in the Next Generation Photonic Networks. While the natural conclusion is to pursue Photonic Packet Switching and Photonic Burst Switching systems, there are significant challenges in realizing such a system due to practical limitations in optical component technologies. Lack of a viable all-optical memory technology will continue to drive us towards exploring rapid reconfigurability in the wavelength domain. We will introduce and discuss the advanced optical component technologies behind the Photonic Packet Routing system designed and demonstrated at UC Davis. The system is capable of packet switching and burst switching, as well as circuit switching with 600 psec switching speed and scalability to 42 petabit/sec aggregated switching capacity. By utilizing a combination of rapidly tunable wavelength conversion and a uniform-loss cyclic frequency (ULCF) arrayed waveguide grating router (AWGR), the system is capable of rapidly switching the packets in wavelength, time, and space domains. The label swapping module inside the Photonic Packet Routing system containing a Mach-Zehnder wavelength converter and a narrow-band fiber Bragg-grating achieves all-optical label swapping with optical 2R (potentially 3R) regeneration while maintaining optical transparency for the data payload. By utilizing the advanced optical component technologies, the Photonic Packet Routing system successfully demonstrated error-free, cascaded, multi-hop photonic packet switching and routing with optical-label swapping. This paper will review the advanced optical component technologies

  4. 76 FR 49776 - The Development and Evaluation of Next-Generation Smallpox Vaccines; Public Workshop

    Science.gov (United States)

    2011-08-11

    ...] The Development and Evaluation of Next-Generation Smallpox Vaccines; Public Workshop AGENCY: Food and... Evaluation of Next-Generation Smallpox Vaccines.'' The purpose of the public workshop is to identify and discuss the key issues related to the development and evaluation of next-generation smallpox vaccines. The...

  5. Comparative Transcriptomic Analysis in Paddy Rice under Storage and Identification of Differentially Regulated Genes in Response to High Temperature and Humidity.

    Science.gov (United States)

    Zhao, Chanjuan; Xie, Junqi; Li, Li; Cao, Chongjiang

    2017-09-20

    The transcriptomes of paddy rice in response to high temperature and humidity were studied using a high-throughput RNA sequencing approach. Effects of high temperature and humidity on the sucrose and starch contents and α/β-amylase activity were also investigated. Results showed that 6876 differentially expressed genes (DEGs) were identified in paddy rice under high temperature and humidity storage. Importantly, 12 DEGs that were downregulated fell into the "starch and sucrose pathway". The quantitative real-time polymerase chain reaction assays indicated that expression of these 12 DEGs was significantly decreased, which was in parallel with the reduced level of enzyme activities and the contents of sucrose and starch in paddy rice stored at high temperature and humidity conditions compared to the control group. Taken together, high temperature and humidity influence the quality of paddy rice at least partially by downregulating the expression of genes encoding sucrose transferases and hydrolases, which might result in the decrease of starch and sucrose contents.

  6. Performance analysis of next-generation lunar laser retroreflectors

    Science.gov (United States)

    Ciocci, Emanuele; Martini, Manuele; Contessa, Stefania; Porcelli, Luca; Mastrofini, Marco; Currie, Douglas; Delle Monache, Giovanni; Dell'Agnello, Simone

    2017-09-01

    Starting from 1969, Lunar Laser Ranging (LLR) to the Apollo and Lunokhod Cube Corner Retroreflectors (CCRs) provided several tests of General Relativity (GR). When deployed, the Apollo/Lunokhod CCRs design contributed only a negligible fraction of the ranging error budget. Today the improvement over the years in the laser ground stations makes the lunar libration contribution relevant. So the libration now dominates the error budget limiting the precision of the experimental tests of gravitational theories. The MoonLIGHT-2 project (Moon Laser Instrumentation for General relativity High-accuracy Tests - Phase 2) is a next-generation LLR payload developed by the Satellite/lunar/GNSS laser ranging/altimetry and Cube/microsat Characterization Facilities Laboratory (SCF _ Lab) at the INFN-LNF in collaboration with the University of Maryland. With its unique design consisting of a single large CCR unaffected by librations, MoonLIGHT-2 can significantly reduce error contribution of the reflectors to the measurement of the lunar geodetic precession and other GR tests compared to Apollo/Lunokhod CCRs. This paper treats only this specific next-generation lunar laser retroreflector (MoonLIGHT-2) and it is by no means intended to address other contributions to the global LLR error budget. MoonLIGHT-2 is approved to be launched with the Moon Express 1(MEX-1) mission and will be deployed on the Moon surface in 2018. To validate/optimize MoonLIGHT-2, the SCF _ Lab is carrying out a unique experimental test called SCF-Test: the concurrent measurement of the optical Far Field Diffraction Pattern (FFDP) and the temperature distribution of the CCR under thermal conditions produced with a close-match solar simulator and simulated space environment. The focus of this paper is to describe the SCF _ Lab specialized characterization of the performance of our next-generation LLR payload. While this payload will improve the contribution of the error budget of the space segment (MoonLIGHT-2

  7. AgMIP: Next Generation Models and Assessments

    Science.gov (United States)

    Rosenzweig, C.

    2014-12-01

    Next steps in developing next-generation crop models fall into several categories: significant improvements in simulation of important crop processes and responses to stress; extension from simplified crop models to complex cropping systems models; and scaling up from site-based models to landscape, national, continental, and global scales. Crop processes that require major leaps in understanding and simulation in order to narrow uncertainties around how crops will respond to changing atmospheric conditions include genetics; carbon, temperature, water, and nitrogen; ozone; and nutrition. The field of crop modeling has been built on a single crop-by-crop approach. It is now time to create a new paradigm, moving from 'crop' to 'cropping system.' A first step is to set up the simulation technology so that modelers can rapidly incorporate multiple crops within fields, and multiple crops over time. Then the response of these more complex cropping systems can be tested under different sustainable intensification management strategies utilizing the updated simulation environments. Model improvements for diseases, pests, and weeds include developing process-based models for important diseases, frameworks for coupling air-borne diseases to crop models, gathering significantly more data on crop impacts, and enabling the evaluation of pest management strategies. Most smallholder farming in the world involves integrated crop-livestock systems that cannot be represented by crop modeling alone. Thus, next-generation cropping system models need to include key linkages to livestock. Livestock linkages to be incorporated include growth and productivity models for grasslands and rangelands as well as the usual annual crops. There are several approaches for scaling up, including use of gridded models and development of simpler quasi-empirical models for landscape-scale analysis. On the assessment side, AgMIP is leading a community process for coordinated contributions to IPCC AR6

  8. Microbial production of next-generation stevia sweeteners.

    Science.gov (United States)

    Olsson, Kim; Carlsen, Simon; Semmler, Angelika; Simón, Ernesto; Mikkelsen, Michael Dalgaard; Møller, Birger Lindberg

    2016-12-07

    The glucosyltransferase UGT76G1 from Stevia rebaudiana is a chameleon enzyme in the targeted biosynthesis of the next-generation premium stevia sweeteners, rebaudioside D (Reb D) and rebaudioside M (Reb M). These steviol glucosides carry five and six glucose units, respectively, and have low sweetness thresholds, high maximum sweet intensities and exhibit a greatly reduced lingering bitter taste compared to stevioside and rebaudioside A, the most abundant steviol glucosides in the leaves of Stevia rebaudiana. In the metabolic glycosylation grid leading to production of Reb D and Reb M, UGT76G1 was found to catalyze eight different reactions all involving 1,3-glucosylation of steviol C 13 - and C 19 -bound glucoses. Four of these reactions lead to Reb D and Reb M while the other four result in formation of side-products unwanted for production. In this work, side-product formation was reduced by targeted optimization of UGT76G1 towards 1,3 glucosylation of steviol glucosides that are already 1,2-diglucosylated. The optimization of UGT76G1 was based on homology modelling, which enabled identification of key target amino acids present in the substrate-binding pocket. These residues were then subjected to site-saturation mutagenesis and a mutant library containing a total of 1748 UGT76G1 variants was screened for increased accumulation of Reb D or M, as well as for decreased accumulation of side-products. This screen was performed in a Saccharomyces cerevisiae strain expressing all enzymes in the rebaudioside biosynthesis pathway except for UGT76G1. Screening of the mutant library identified mutations with positive impact on the accumulation of Reb D and Reb M. The effect of the introduced mutations on other reactions in the metabolic grid was characterized. This screen made it possible to identify variants, such as UGT76G1 Thr146Gly and UGT76G1 His155Leu , which diminished accumulation of unwanted side-products and gave increased specific accumulation of the desired

  9. Optimal localisation of next generation Biofuel production in Sweden

    Energy Technology Data Exchange (ETDEWEB)

    Wetterlund, Elisabeth [Linkoeping Univ., Linkoeping (Sweden); Pettersson, Karin [Chalmers Univ. of Technology, Goeteborg (Sweden); Mossberg, Johanna [SP Technical Research Inst. of Sweden, Boraas (Sweden)] [and others

    2013-09-01

    With a high availability of lignocellulosic biomass and various types of cellulosic by-products, as well as a large number of industries, Sweden is a country of great interest for future large scale production of sustainable, next generation biofuels. This is most likely also a necessity as Sweden has the ambition to be independent of fossil fuels in the transport sector by the year 2030 and completely fossil free by 2050. In order to reach competitive biofuel production costs, plants with large production capacities are likely to be required. Feedstock intake capacities in the range of about 1-2 million tonnes per year, corresponding to a biomass feed of 300-600 MW, can be expected, which may lead to major logistical challenges. To enable expansion of biofuel production in such large plants, as well as provide for associated distribution requirements, it is clear that substantial infrastructure planning will be needed. The geographical location of the production plant facilities is therefore of crucial importance and must be strategic to minimise the transports of raw material as well as of final product. Competition for the available feedstock, from for example forest industries and CHP plants (combined heat and power) further complicates the localisation problem. Since the potential for an increased biomass utilisation is limited, high overall resource efficiency is of great importance. Integration of biofuel production processes in existing industries or in district heating systems may be beneficial from several aspects, such as opportunities for efficient heat integration, feedstock and equipment integration, as well as access to existing experience and know-how. This report describes the development of Be Where Sweden, a geographically explicit optimisation model for localisation of next generation biofuel production plants in Sweden. The main objective of developing such a model is to be able to assess production plant locations that are robust to varying

  10. A Next-Generation Automated Holdup Measurement System (HMS-5)

    International Nuclear Information System (INIS)

    Gariazzo, Claudio Andres; Smith, Steven E.; Solodov, Alexander A

    2007-01-01

    Holdup Measurement System 4 software (HMS4) has been in use at facilities to systematically measure and verify the amounts of uranium holdup in process facilities under safeguards since its release in 2004. It is a system for measuring uranium and plutonium and archiving holdup data (via barcoded locations with information) which is essential for any internationally safeguarded facility to monitor all amounts of residual special nuclear material (SNM). Additionally, HMS4 has been tested by sites in Russia, the United States, South Africa, and China for more effective application. Comments and lessons learned have been received over time and an updated version of the software would enable the international partners to use a wider variety of commercial equipment existing at these facilities. In June 2005, the Oak Ridge National Laboratory (ORNL) and Los Alamos National Laboratory conducted a holdup measurement training course on HMS4 for subject matter experts from the Ulba Metallurgical Facility at Ust-Kamenogorsk, Kazakhstan, which included an additional external software package for improved measurements of low-enriched uranium by using higher energy gamma-rays more readily found. Due to not being currently integrated into HMS4, it would be greatly beneficial to include this application in the next generation HMS software package (HMS-5). This software system upgrade would assist the International Atomic Energy Agency (IAEA) in having a more comprehensive software package and having it tested at several safeguarded locations. When released, HMS4 only supported AMETEK/ORTEC equipment despite many facilities currently utilizing Canberra Industries technology (detectors, multi-channel analyzers, other hardware, and software packages). For HMS-5 to support all available hardware systems and to benefit the majority of international partners and the IAEA, Canberra technology must be integrated because of such widespread use of its hardware. Furthermore, newly developed

  11. Free Space Optics for Next Generation Cellular Backhaul

    KAUST Repository

    Zedini, Emna

    2016-11-01

    The exponential increase in the number of mobile users, coupled with the strong demand for high-speed data services results in a significant growth in the required cellular backhaul capacity. Optimizing the cost efficiency while increasing the capacity is becoming a key challenge to the cellular backhaul. It refers to connections between base stations and mobile switching nodes over a variety of transport technologies such as copper, optical fibers, and radio links. These traditional transmission technologies are either expensive, or cannot provide high data rates. This work is focused on the opportunities of free-space-optical (FSO) technology in next generation cellular back- haul. FSO is a cost effective and wide bandwidth solution as compared with the traditional radio-frequency (RF) transmission. Moreover, due to its ease of deployment, license-free operation, high transmission security, and insensitivity to interference, FSO links are becoming an attractive solution for next generation cellular networks. However, the widespread deployment of FSO links is hampered by the atmospheric turbulence-induced fading, weather conditions, and pointing errors. Increasing the reliability of FSO systems, while still exploiting their high data rate communications, is a key requirement in the deployment of an FSO-based backhaul. Therefore, the aim of this work is to provide different approaches to address these technical challenges. In this context, investigation of hybrid automatic repeat request (HARQ) protocols from an information-theoretic perspective is undertaken. Moreover, performance analysis of asymmetric RF/FSO dual-hop systems is studied. In such system models, multiple RF users can be multiplexed and sent over the FSO link. More specifically, the end-to-end performance metrics are presented in closed-form. This also has increased the interest to study the performance of dual-hop mixed FSO/RF systems, where the FSO link is used as a multicast channel that serves

  12. DNA Qualification Workflow for Next Generation Sequencing of Histopathological Samples

    Science.gov (United States)

    Simbolo, Michele; Gottardi, Marisa; Corbo, Vincenzo; Fassan, Matteo; Mafficini, Andrea; Malpeli, Giorgio; Lawlor, Rita T.; Scarpa, Aldo

    2013-01-01

    Histopathological samples are a treasure-trove of DNA for clinical research. However, the quality of DNA can vary depending on the source or extraction method applied. Thus a standardized and cost-effective workflow for the qualification of DNA preparations is essential to guarantee interlaboratory reproducible results. The qualification process consists of the quantification of double strand DNA (dsDNA) and the assessment of its suitability for downstream applications, such as high-throughput next-generation sequencing. We tested the two most frequently used instrumentations to define their role in this process: NanoDrop, based on UV spectroscopy, and Qubit 2.0, which uses fluorochromes specifically binding dsDNA. Quantitative PCR (qPCR) was used as the reference technique as it simultaneously assesses DNA concentration and suitability for PCR amplification. We used 17 genomic DNAs from 6 fresh-frozen (FF) tissues, 6 formalin-fixed paraffin-embedded (FFPE) tissues, 3 cell lines, and 2 commercial preparations. Intra- and inter-operator variability was negligible, and intra-methodology variability was minimal, while consistent inter-methodology divergences were observed. In fact, NanoDrop measured DNA concentrations higher than Qubit and its consistency with dsDNA quantification by qPCR was limited to high molecular weight DNA from FF samples and cell lines, where total DNA and dsDNA quantity virtually coincide. In partially degraded DNA from FFPE samples, only Qubit proved highly reproducible and consistent with qPCR measurements. Multiplex PCR amplifying 191 regions of 46 cancer-related genes was designated the downstream application, using 40 ng dsDNA from FFPE samples calculated by Qubit. All but one sample produced amplicon libraries suitable for next-generation sequencing. NanoDrop UV-spectrum verified contamination of the unsuccessful sample. In conclusion, as qPCR has high costs and is labor intensive, an alternative effective standard workflow for

  13. DNA qualification workflow for next generation sequencing of histopathological samples.

    Directory of Open Access Journals (Sweden)

    Michele Simbolo

    Full Text Available Histopathological samples are a treasure-trove of DNA for clinical research. However, the quality of DNA can vary depending on the source or extraction method applied. Thus a standardized and cost-effective workflow for the qualification of DNA preparations is essential to guarantee interlaboratory reproducible results. The qualification process consists of the quantification of double strand DNA (dsDNA and the assessment of its suitability for downstream applications, such as high-throughput next-generation sequencing. We tested the two most frequently used instrumentations to define their role in this process: NanoDrop, based on UV spectroscopy, and Qubit 2.0, which uses fluorochromes specifically binding dsDNA. Quantitative PCR (qPCR was used as the reference technique as it simultaneously assesses DNA concentration and suitability for PCR amplification. We used 17 genomic DNAs from 6 fresh-frozen (FF tissues, 6 formalin-fixed paraffin-embedded (FFPE tissues, 3 cell lines, and 2 commercial preparations. Intra- and inter-operator variability was negligible, and intra-methodology variability was minimal, while consistent inter-methodology divergences were observed. In fact, NanoDrop measured DNA concentrations higher than Qubit and its consistency with dsDNA quantification by qPCR was limited to high molecular weight DNA from FF samples and cell lines, where total DNA and dsDNA quantity virtually coincide. In partially degraded DNA from FFPE samples, only Qubit proved highly reproducible and consistent with qPCR measurements. Multiplex PCR amplifying 191 regions of 46 cancer-related genes was designated the downstream application, using 40 ng dsDNA from FFPE samples calculated by Qubit. All but one sample produced amplicon libraries suitable for next-generation sequencing. NanoDrop UV-spectrum verified contamination of the unsuccessful sample. In conclusion, as qPCR has high costs and is labor intensive, an alternative effective standard

  14. Microbiome Selection Could Spur Next-Generation Plant Breeding Strategies.

    Science.gov (United States)

    Gopal, Murali; Gupta, Alka

    2016-01-01

    " No plant is an island too …" Plants, though sessile, have developed a unique strategy to counter biotic and abiotic stresses by symbiotically co-evolving with microorganisms and tapping into their genome for this purpose. Soil is the bank of microbial diversity from which a plant selectively sources its microbiome to suit its needs. Besides soil, seeds, which carry the genetic blueprint of plants during trans-generational propagation, are home to diverse microbiota that acts as the principal source of microbial inoculum in crop cultivation. Overall, a plant is ensconced both on the outside and inside with a diverse assemblage of microbiota. Together, the plant genome and the genes of the microbiota that the plant harbors in different plant tissues, i.e., the 'plant microbiome,' form the holobiome which is now considered as unit of selection: 'the holobiont.' The 'plant microbiome' not only helps plants to remain fit but also offers critical genetic variability, hitherto, not employed in the breeding strategy by plant breeders, who traditionally have exploited the genetic variability of the host for developing high yielding or disease tolerant or drought resistant varieties. This fresh knowledge of the microbiome, particularly of the rhizosphere, offering genetic variability to plants, opens up new horizons for breeding that could usher in cultivation of next-generation crops depending less on inorganic inputs, resistant to insect pest and diseases and resilient to climatic perturbations. We surmise, from ever increasing evidences, that plants and their microbial symbionts need to be co-propagated as life-long partners in future strategies for plant breeding. In this perspective, we propose bottom-up approach to co-propagate the co-evolved, the plant along with the target microbiome, through - (i) reciprocal soil transplantation method, or (ii) artificial ecosystem selection method of synthetic microbiome inocula, or (iii) by exploration of microRNA transfer

  15. Implementing Value Added Applications in Next Generation Networks

    Directory of Open Access Journals (Sweden)

    Yuan-Kuang Tu

    2010-08-01

    Full Text Available One of the major issues in the future Internet is the integration of telecom networks with the Internet. In many countries, large Internet Service Providers (ISPs are also telecom operators that have been focusing on providing Internet services through their telecom networks with telecom-grade mechanisms. In this article, we show that IP Multimedia Subsystem (IMS is a telecom-grade mechanism that addresses this important issue. In Next Generation Network (NGN, IMS supports IP-based multimedia services that can be accessed from various wireless and wired access technologies through fixed-mobile convergence. We show how to integrate Internet Protocol Television (IPTV with NGN/IMS to offer enhanced IPTV services for subscribers with set-top boxes or mobile phones. We specifically describe the implementations of three services: weather forecasts, short messages on TV screens and TV shopping/food ordering for mobile users. Although these services can be directly implemented in the Internet, our commercial operation experiences indicate that the NGN/IMS implementation has advantages in terms of telecom-grade security, Quality of Service (QoS, and flexible service creation.

  16. Accelerating next generation sequencing data analysis with system level optimizations.

    Science.gov (United States)

    Kathiresan, Nagarajan; Temanni, Ramzi; Almabrazi, Hakeem; Syed, Najeeb; Jithesh, Puthen V; Al-Ali, Rashid

    2017-08-22

    Next generation sequencing (NGS) data analysis is highly compute intensive. In-memory computing, vectorization, bulk data transfer, CPU frequency scaling are some of the hardware features in the modern computing architectures. To get the best execution time and utilize these hardware features, it is necessary to tune the system level parameters before running the application. We studied the GATK-HaplotypeCaller which is part of common NGS workflows, that consume more than 43% of the total execution time. Multiple GATK 3.x versions were benchmarked and the execution time of HaplotypeCaller was optimized by various system level parameters which included: (i) tuning the parallel garbage collection and kernel shared memory to simulate in-memory computing, (ii) architecture-specific tuning in the PairHMM library for vectorization, (iii) including Java 1.8 features through GATK source code compilation and building a runtime environment for parallel sorting and bulk data transfer (iv) the default 'on-demand' mode of CPU frequency is over-clocked by using 'performance-mode' to accelerate the Java multi-threads. As a result, the HaplotypeCaller execution time was reduced by 82.66% in GATK 3.3 and 42.61% in GATK 3.7. Overall, the execution time of NGS pipeline was reduced to 70.60% and 34.14% for GATK 3.3 and GATK 3.7 respectively.

  17. Digital Earth reloaded – Beyond the next generation

    International Nuclear Information System (INIS)

    Ehlers, M; Woodgate, P; Annoni, A; Schade, S

    2014-01-01

    Digital replicas (or 'mirror worlds') of complex entities and systems are now routine in many fields such as aerospace engineering; archaeology; medicine; or even fashion design. The Digital Earth (DE) concept as a digital replica of the entire planet occurs in Al Gore's 1992 book Earth in the Balance and was popularized in his speech at the California Science Center in January 1998. It played a pivotal role in stimulating the development of a first generation of virtual globes, typified by Google Earth that achieved many elements of this vision. Almost 15 years after Al Gore's speech, the concept of DE needs to be re-evaluated in the light of the many scientific and technical developments in the fields of information technology, data infrastructures, citizen?s participation, and earth observation that have taken place since. This paper intends to look beyond the next generation predominantly based on the developments of fields outside the spatial sciences, where concepts, software, and hardware with strong relationships to DE are being developed without referring to this term. It also presents a number of guiding criteria for future DE developments

  18. Next Generation Sequencing and ALS: known genes, different phenotyphes.

    Science.gov (United States)

    Campopiano, Rosa; Ryskalin, Larisa; Giardina, Emiliano; Zampatti, Stefania; Busceti, Carla L; Biagioni, Francesca; Ferese, Rosangela; Storto, Marianna; Gambardella, Stefano; Fornai, Francesco

    2017-12-01

    Amyotrophic lateral sclerosis (ALS) is fatal neurodegenerative disease clinically characterized by upper and lower motor neuron dysfunction resulting in rapidly progressive paralysis and death from respiratory failure. Most cases appear to be sporadic, but 5-10 % of cases have a family history of the disease, and over the last decade, identification of mutations in about 20 genes predisposing to these disorders has provided the means to better understand their pathogenesis. Next Generation sequencing (NGS) is an advanced high-throughput DNA sequencing technology which have rapidly contributed to an acceleration in the discovery of genetic risk factors for both familial and sporadic neurological and neurodegenerative diseases. These strategies allowed to rapidly identify disease-associated variants and genetic risk factors for both familial (fALS) and sporadic ALS (sALS), strongly contributing to the knowledge of the genetic architecture of ALS. Moreover, as the number of ALS genes grows, many of the proteins they encode are in intracellular processes shared with other known diseases, suggesting an overlapping of clinical and phatological features between different diseases. To emphasize this concept, the review focuses on genes coding for Valosin-containing protein (VPC) and two Heterogeneous nuclear RNA-binding proteins (HNRNPA1 and hnRNPA2B1), recently idefied through NGS, where different mutations have been associated in both ALS and other neurological and neurodegenerative diseases.

  19. Modular EUV Source for the next generation lithography

    International Nuclear Information System (INIS)

    Sublemontier, O.; Rosset-Kos, M.; Ceccotti, T.; Hergott, J.F.; Auguste, Th.; Normand, D.; Schmidt, M.; Beaumont, F.; Farcage, D.; Cheymol, G.; Le Caro, J.M.; Cormont, Ph.; Mauchien, P.; Thro, P.Y.; Skrzypczak, J.; Muller, S.; Marquis, E.; Barthod, B.; Gaurand, I.; Davenet, M.; Bernard, R.

    2011-01-01

    The present work, performed in the frame of the EXULITE project, was dedicated to the design and characterization of a laser-plasma-produced extreme ultraviolet (EUV) source prototype at 13.5 nm for the next generation lithography. It was conducted in cooperation with two laboratories from CEA, ALCATEL and THALES. One of our approach originalities was the laser scheme modularity. Six Nd:YAG laser beams were focused at the same time on a xenon filament jet to generate the EUV emitting plasma. Multiplexing has important industrial advantages and led to interesting source performances in terms of in-band power, stability and angular emission properties with the filament jet target. A maximum conversion efficiency (CE) value of 0.44% in 2π sr and 2% bandwidth was measured, which corresponds to a maximum in band EUV mean power of 7.7 W at a repetition rate of 6 kHz. The EUV emission was found to be stable and isotropic in these conditions. (authors)

  20. Status of advanced containment systems for next generation water reactors

    International Nuclear Information System (INIS)

    1994-06-01

    The present IAEA status report is intended to provide information on the current status and development of containment systems of the next generation reactors for electricity production and, particularly, to highlight features which may be considered advanced, i.e. which present improved performance with evolutionary or innovative design solutions or new design approaches. The objectives of the present status report are: To present, on a concise and consistent basis, selected containment designs currently being developed in the world; to review and compare new approaches to the design bases for the containments, in order to identify common trends, that may eventually lead to greater worldwide consensus, to identify, list and compare existing design objectives for advanced containments, related to safety, availability, maintainability, plant life, decommissioning, economics, etc.; to describe the general approaches adopted in different advanced containments to cope with various identified challenges, both those included in the current design bases and those related to new events considered in the design; to briefly identify recent achievements and future needs for new or improved computer codes, standards, experimental research, prototype testing, etc. related to containment systems; to describe the outstanding features of some containments or specific solutions proposed by different parties and which are generally interesting to the international scientific community. 36 refs, 27 figs, 1 tab

  1. Handover Based IMS Registration Scheme for Next Generation Mobile Networks

    Directory of Open Access Journals (Sweden)

    Shireen Tahira

    2017-01-01

    Full Text Available Next generation mobile networks aim to provide faster speed and more capacity along with energy efficiency to support video streaming and massive data sharing in social and communication networks. In these networks, user equipment has to register with IP Multimedia Subsystem (IMS which promises quality of service to the mobile users that frequently move across different access networks. After each handover caused due to mobility, IMS provides IPSec Security Association establishment and authentication phases. The main issue is that unnecessary reregistration after every handover results in latency and communication overhead. To tackle these issues, this paper presents a lightweight Fast IMS Mobility (FIM registration scheme that avoids unnecessary conventional registration phases such as security associations, authentication, and authorization. FIM maintains a flag to avoid deregistration and sends a subsequent message to provide necessary parameters to IMS servers after mobility. It also handles the change of IP address for user equipment and transferring the security associations from old to new servers. We have validated the performance of FIM by developing a testbed consisting of IMS servers and user equipment. The experimental results demonstrate the performance supremacy of FIM. It reduces media disruption time, number of messages, and packet loss up to 67%, 100%, and 61%, respectively, as compared to preliminaries.

  2. Next generation industrial biotechnology based on extremophilic bacteria.

    Science.gov (United States)

    Chen, Guo-Qiang; Jiang, Xiao-Ran

    2018-04-01

    Industrial biotechnology aims to produce bulk chemicals including polymeric materials and biofuels based on bioprocessing sustainable agriculture products such as starch, fatty acids and/or cellulose. However, traditional bioprocesses require bioreactors made of stainless steel, complicated sterilization, difficult and expensive separation procedures as well as well-trained engineers that are able to conduct bioprocessing under sterile conditions, reducing the competitiveness of the bio-products. Amid the continuous low petroleum price, next generation industrial biotechnology (NGIB) allows bioprocessing to be conducted under unsterile (open) conditions using ceramic, cement or plastic bioreactors in a continuous way, it should be an energy, water and substrate saving technology with convenient operation procedure. NGIB also requires less capital investment and reduces demand on highly trained engineers. The foundation for the simplified NGIB is microorganisms that resist contaminations by other microbes, one of the examples is rapid growing halophilic bacteria inoculated under high salt concentration and alkali pH. They have been engineered to produce multiple products in various scales. Copyright © 2017 Elsevier Ltd. All rights reserved.

  3. Assessing the Genetics Content in the Next Generation Science Standards.

    Directory of Open Access Journals (Sweden)

    Katherine S Lontok

    Full Text Available Science standards have a long history in the United States and currently form the backbone of efforts to improve primary and secondary education in science, technology, engineering, and math (STEM. Although there has been much political controversy over the influence of standards on teacher autonomy and student performance, little light has been shed on how well standards cover science content. We assessed the coverage of genetics content in the Next Generation Science Standards (NGSS using a consensus list of American Society of Human Genetics (ASHG core concepts. We also compared the NGSS against state science standards. Our goals were to assess the potential of the new standards to support genetic literacy and to determine if they improve the coverage of genetics concepts relative to state standards. We found that expert reviewers cannot identify ASHG core concepts within the new standards with high reliability, suggesting that the scope of content addressed by the standards may be inconsistently interpreted. Given results that indicate that the disciplinary core ideas (DCIs included in the NGSS documents produced by Achieve, Inc. clarify the content covered by the standards statements themselves, we recommend that the NGSS standards statements always be viewed alongside their supporting disciplinary core ideas. In addition, gaps exist in the coverage of essential genetics concepts, most worryingly concepts dealing with patterns of inheritance, both Mendelian and complex. Finally, state standards vary widely in their coverage of genetics concepts when compared with the NGSS. On average, however, the NGSS support genetic literacy better than extant state standards.

  4. Coupled Qubits for Next Generation Quantum Annealing: Improving Coherence

    Science.gov (United States)

    Weber, Steven; Samach, Gabriel; Hover, David; Rosenberg, Danna; Yoder, Jonilyn; Kim, David K.; Kerman, Andrew; Oliver, William D.

    Quantum annealing is an optimization technique which potentially leverages quantum tunneling to enhance computational performance. Existing quantum annealers use superconducting flux qubits with short coherence times, limited primarily by the use of large persistent currents. Here, we examine an alternative approach, using flux qubits with smaller persistent currents and longer coherence times. We demonstrate tunable coupling, a basic building-block for quantum annealing, between two such qubits. Furthermore, we characterize qubit coherence as a function of coupler setting and investigate the effect of flux noise in the coupler loop on qubit coherence. Our results provide insight into the available design space for next-generation quantum annealers with improved coherence. This research was funded by the Office of the Director of National Intelligence (ODNI), Intelligence Advanced Research Projects Activity (IARPA) and by the Assistant Secretary of Defense for Research & Engineering under Air Force Contract No. FA8721-05-C-0002. The views and conclusions contained herein are those of the authors and should not be interpreted as necessarily representing the official policies or endorsements, either expressed or implied, of ODNI, IARPA, or the US Government.

  5. Coupled Qubits for Next Generation Quantum Annealing: Novel Interactions

    Science.gov (United States)

    Samach, Gabriel; Weber, Steven; Hover, David; Rosenberg, Danna; Yoder, Jonilyn; Kim, David; Oliver, William D.; Kerman, Andrew J.

    While the first generation of quantum annealers based on Josephson junction technology have been successfully engineered to represent arrays of spins in the quantum transverse-field Ising model, no circuit architecture to date has succeeded in emulating the more complicated non-stoquastic Hamiltonians of interest for next generation quantum annealing. Here, we present our recent results for tunable ZZ- and XX-coupling between high coherence superconducting flux qubits. We discuss the larger architectures these coupled two-qubit building blocks will enable, as well as comment on the limitations of such architectures. This research was funded by the Office of the Director of National Intelligence (ODNI), Intelligence Advanced Research Projects Activity (IARPA) and by the Assistant Secretary of Defense for Research & Engineering under Air Force Contract No. FA8721-05-C-0002. The views and conclusions contained herein are those of the authors and should not be interpreted as necessarily representing the official policies or endorsements, either expressed or implied, of ODNI, IARPA, or the US Government.

  6. A Proposal for a Next Generation European Neutron Source

    International Nuclear Information System (INIS)

    Andersen, K.H.; Carlile, C.J.

    2016-01-01

    We argue that it is not too early to begin the planning process for a next generation neutron source for Europe, even as the European Spallation Source is being constructed. We put forward three main arguments. Firstly, nowadays the period between the first scientific concept of a new facility being proposed and its actual realisation is approaching half a century. We show evidence for this. Secondly, there is a straightforward development of the short pulse/long pulse spallation concepts that will deliver gains in neutron brightness of more than a factor 30 over what the ESS will soon deliver and provide the optimum balance between resolution and intensity. We describe our concept, which is a spallation source where the proton pulse length is matched to the moderating time of slow neutrons. Thirdly, when we look at our colleagues in astronomy and high energy physics, we see that they have a totally different, more global and more ambitious approach to the coming generations of large facilities. We argue that it is time for the neutron community not simply to rest upon its laurels and take what is given but to be proactive.. (paper)

  7. Network Restoration for Next-Generation Communication and Computing Networks

    Directory of Open Access Journals (Sweden)

    B. S. Awoyemi

    2018-01-01

    Full Text Available Network failures are undesirable but inevitable occurrences for most modern communication and computing networks. A good network design must be robust enough to handle sudden failures, maintain traffic flow, and restore failed parts of the network within a permissible time frame, at the lowest cost achievable and with as little extra complexity in the network as possible. Emerging next-generation (xG communication and computing networks such as fifth-generation networks, software-defined networks, and internet-of-things networks have promises of fast speeds, impressive data rates, and remarkable reliability. To achieve these promises, these complex and dynamic xG networks must be built with low failure possibilities, high network restoration capacity, and quick failure recovery capabilities. Hence, improved network restoration models have to be developed and incorporated in their design. In this paper, a comprehensive study on network restoration mechanisms that are being developed for addressing network failures in current and emerging xG networks is carried out. Open-ended problems are identified, while invaluable ideas for better adaptation of network restoration to evolving xG communication and computing paradigms are discussed.

  8. Next generation tools for genomic data generation, distribution, and visualization

    Directory of Open Access Journals (Sweden)

    Nix David A

    2010-09-01

    Full Text Available Abstract Background With the rapidly falling cost and availability of high throughput sequencing and microarray technologies, the bottleneck for effectively using genomic analysis in the laboratory and clinic is shifting to one of effectively managing, analyzing, and sharing genomic data. Results Here we present three open-source, platform independent, software tools for generating, analyzing, distributing, and visualizing genomic data. These include a next generation sequencing/microarray LIMS and analysis project center (GNomEx; an application for annotating and programmatically distributing genomic data using the community vetted DAS/2 data exchange protocol (GenoPub; and a standalone Java Swing application (GWrap that makes cutting edge command line analysis tools available to those who prefer graphical user interfaces. Both GNomEx and GenoPub use the rich client Flex/Flash web browser interface to interact with Java classes and a relational database on a remote server. Both employ a public-private user-group security model enabling controlled distribution of patient and unpublished data alongside public resources. As such, they function as genomic data repositories that can be accessed manually or programmatically through DAS/2-enabled client applications such as the Integrated Genome Browser. Conclusions These tools have gained wide use in our core facilities, research laboratories and clinics and are freely available for non-profit use. See http://sourceforge.net/projects/gnomex/, http://sourceforge.net/projects/genoviz/, and http://sourceforge.net/projects/useq.

  9. Next generation tools for genomic data generation, distribution, and visualization.

    Science.gov (United States)

    Nix, David A; Di Sera, Tonya L; Dalley, Brian K; Milash, Brett A; Cundick, Robert M; Quinn, Kevin S; Courdy, Samir J

    2010-09-09

    With the rapidly falling cost and availability of high throughput sequencing and microarray technologies, the bottleneck for effectively using genomic analysis in the laboratory and clinic is shifting to one of effectively managing, analyzing, and sharing genomic data. Here we present three open-source, platform independent, software tools for generating, analyzing, distributing, and visualizing genomic data. These include a next generation sequencing/microarray LIMS and analysis project center (GNomEx); an application for annotating and programmatically distributing genomic data using the community vetted DAS/2 data exchange protocol (GenoPub); and a standalone Java Swing application (GWrap) that makes cutting edge command line analysis tools available to those who prefer graphical user interfaces. Both GNomEx and GenoPub use the rich client Flex/Flash web browser interface to interact with Java classes and a relational database on a remote server. Both employ a public-private user-group security model enabling controlled distribution of patient and unpublished data alongside public resources. As such, they function as genomic data repositories that can be accessed manually or programmatically through DAS/2-enabled client applications such as the Integrated Genome Browser. These tools have gained wide use in our core facilities, research laboratories and clinics and are freely available for non-profit use. See http://sourceforge.net/projects/gnomex/, http://sourceforge.net/projects/genoviz/, and http://sourceforge.net/projects/useq.

  10. The next generation of Palapa satellite (Palapa-C)

    Science.gov (United States)

    Setiawan, Bambang

    The Indonesian Palapa Communication Satellite System was established in Aug. 1976 when the first satellite of Palapa A series (Palapa A1) began operation. The system is owned and operated by PT. Telekomunikasi Indonesia (Telkom), which is a state owned company. The purpose of the system was to unify the telecommunications of the nation. Many years of operation have shown that satellite technology is the best solution for improving telecommunications in Indonesia. The system was started with 2 (two) satellites, each with 12 transponders (for a total of 24), and 40 earth stations. Now the system has 3 (three) satellites, each with 24 transponders (for a total of 72 transponders), and thousands of earth stations. The services have been extended to satisfy the requirements of the region as well as the original objectives. The use of satellite transponders in the region is increasing rapidly. In the next ten years, opportunities in the satellite communications business will become even more attractive. The next generation Palapa-C will incorporate improvements in capacity, quality, and coverage. The new frequency bands (ku- and Extended-C Band) will be used to meet the new transponder capacity requirements.

  11. Precise Thermometry for Next Generation LHC Superconducting Magnet Prototypes

    CERN Document Server

    Datskov, V; Bottura, L; Perez, J C; Borgnolutti, F; Jenninger, B; Ryan, P

    2013-01-01

    The next generation of LHC superconducting magnets is very challenging and must operate in harsh conditions: high radiation doses in a range between 10 and 50 MGy, high voltage environment of 1 to 5 kV during the quench, dynamic high magnetic field up to 12 T, dynamic temperature range 1.8 K to 300 K in 0.6 sec. For magnet performance and long term reliability it is important to study dynamic thermal effects, such as the heat flux through the magnet structure, or measuring hot spot in conductors during a magnet quench with high sampling rates above 200 Hz. Available on the market cryogenic temperature sensors comparison is given. An analytical model for special electrically insulating thermal anchor (Kapton pad) with high voltage insulation is described. A set of instrumentation is proposed for fast monitoring of thermal processes during normal operation, quenches and failure situations. This paper presents the technology applicable for mounting temperature sensors on high voltage superconducting (SC) cables....

  12. Next-generation phenomics for the Tree of Life.

    Science.gov (United States)

    Burleigh, J Gordon; Alphonse, Kenzley; Alverson, Andrew J; Bik, Holly M; Blank, Carrine; Cirranello, Andrea L; Cui, Hong; Daly, Marymegan; Dietterich, Thomas G; Gasparich, Gail; Irvine, Jed; Julius, Matthew; Kaufman, Seth; Law, Edith; Liu, Jing; Moore, Lisa; O'Leary, Maureen A; Passarotti, Maria; Ranade, Sonali; Simmons, Nancy B; Stevenson, Dennis W; Thacker, Robert W; Theriot, Edward C; Todorovic, Sinisa; Velazco, Paúl M; Walls, Ramona L; Wolfe, Joanna M; Yu, Mengjie

    2013-06-26

    The phenotype represents a critical interface between the genome and the environment in which organisms live and evolve. Phenotypic characters also are a rich source of biodiversity data for tree building, and they enable scientists to reconstruct the evolutionary history of organisms, including most fossil taxa, for which genetic data are unavailable. Therefore, phenotypic data are necessary for building a comprehensive Tree of Life. In contrast to recent advances in molecular sequencing, which has become faster and cheaper through recent technological advances, phenotypic data collection remains often prohibitively slow and expensive. The next-generation phenomics project is a collaborative, multidisciplinary effort to leverage advances in image analysis, crowdsourcing, and natural language processing to develop and implement novel approaches for discovering and scoring the phenome, the collection of phentotypic characters for a species. This research represents a new approach to data collection that has the potential to transform phylogenetics research and to enable rapid advances in constructing the Tree of Life. Our goal is to assemble large phenomic datasets built using new methods and to provide the public and scientific community with tools for phenomic data assembly that will enable rapid and automated study of phenotypes across the Tree of Life.

  13. Machine learning and next-generation asteroid surveys

    Science.gov (United States)

    Nugent, Carrie R.; Dailey, John; Cutri, Roc M.; Masci, Frank J.; Mainzer, Amy K.

    2017-10-01

    Next-generation surveys such as NEOCam (Mainzer et al., 2016) will sift through tens of millions of point source detections daily to detect and discover asteroids. This requires new, more efficient techniques to distinguish between solar system objects, background stars and galaxies, and artifacts such as cosmic rays, scattered light and diffraction spikes.Supervised machine learning is a set of algorithms that allows computers to classify data on a training set, and then apply that classification to make predictions on new datasets. It has been employed by a broad range of fields, including computer vision, medical diagnoses, economics, and natural language processing. It has also been applied to astronomical datasets, including transient identification in the Palomar Transient Factory pipeline (Masci et al., 2016), and in the Pan-STARRS1 difference imaging (D. E. Wright et al., 2015).As part of the NEOCam extended phase A work we apply machine learning techniques to the problem of asteroid detection. Asteroid detection is an ideal application of supervised learning, as there is a wealth of metrics associated with each extracted source, and suitable training sets are easily created. Using the vetted NEOWISE dataset (E. L. Wright et al., 2010, Mainzer et al., 2011) as a proof-of-concept of this technique, we applied the python package sklearn. We report on reliability, feature set selection, and the suitability of various algorithms.

  14. Assessing the Genetics Content in the Next Generation Science Standards.

    Science.gov (United States)

    Lontok, Katherine S; Zhang, Hubert; Dougherty, Michael J

    2015-01-01

    Science standards have a long history in the United States and currently form the backbone of efforts to improve primary and secondary education in science, technology, engineering, and math (STEM). Although there has been much political controversy over the influence of standards on teacher autonomy and student performance, little light has been shed on how well standards cover science content. We assessed the coverage of genetics content in the Next Generation Science Standards (NGSS) using a consensus list of American Society of Human Genetics (ASHG) core concepts. We also compared the NGSS against state science standards. Our goals were to assess the potential of the new standards to support genetic literacy and to determine if they improve the coverage of genetics concepts relative to state standards. We found that expert reviewers cannot identify ASHG core concepts within the new standards with high reliability, suggesting that the scope of content addressed by the standards may be inconsistently interpreted. Given results that indicate that the disciplinary core ideas (DCIs) included in the NGSS documents produced by Achieve, Inc. clarify the content covered by the standards statements themselves, we recommend that the NGSS standards statements always be viewed alongside their supporting disciplinary core ideas. In addition, gaps exist in the coverage of essential genetics concepts, most worryingly concepts dealing with patterns of inheritance, both Mendelian and complex. Finally, state standards vary widely in their coverage of genetics concepts when compared with the NGSS. On average, however, the NGSS support genetic literacy better than extant state standards.

  15. Zseq: An Approach for Preprocessing Next-Generation Sequencing Data.

    Science.gov (United States)

    Alkhateeb, Abedalrhman; Rueda, Luis

    2017-08-01

    Next-generation sequencing technology generates a huge number of reads (short sequences), which contain a vast amount of genomic data. The sequencing process, however, comes with artifacts. Preprocessing of sequences is mandatory for further downstream analysis. We present Zseq, a linear method that identifies the most informative genomic sequences and reduces the number of biased sequences, sequence duplications, and ambiguous nucleotides. Zseq finds the complexity of the sequences by counting the number of unique k-mers in each sequence as its corresponding score and also takes into the account other factors such as ambiguous nucleotides or high GC-content percentage in k-mers. Based on a z-score threshold, Zseq sweeps through the sequences again and filters those with a z-score less than the user-defined threshold. Zseq algorithm is able to provide a better mapping rate; it reduces the number of ambiguous bases significantly in comparison with other methods. Evaluation of the filtered reads has been conducted by aligning the reads and assembling the transcripts using the reference genome as well as de novo assembly. The assembled transcripts show a better discriminative ability to separate cancer and normal samples in comparison with another state-of-the-art method. Moreover, de novo assembled transcripts from the reads filtered by Zseq have longer genomic sequences than other tested methods. Estimating the threshold of the cutoff point is introduced using labeling rules with optimistic results.

  16. Next-Generation Dengue Vaccines: Novel Strategies Currently Under Development

    Directory of Open Access Journals (Sweden)

    Anna P. Durbin

    2011-09-01

    Full Text Available Dengue has become the most important arboviral infection worldwide with more than 30 million cases of dengue fever estimated to occur each year. The need for a dengue vaccine is great and several live attenuated dengue candidate vaccines are proceeding through clinical evaluation. The need to induce a balanced immune response against all four DENV serotypes with a single vaccine has been a challenge for dengue vaccine developers. A live attenuated DENV chimeric vaccine produced by Sanofi Pasteur has recently entered Phase III evaluation in numerous dengue-endemic regions of the world. Viral interference between serotypes contained in live vaccines has required up to three doses of the vaccine be given over a 12-month period of time. For this reason, novel DENV candidate vaccines are being developed with the goal of achieving a protective immune response with an immunization schedule that can be given over the course of a few months. These next-generation candidates include DNA vaccines, recombinant adenovirus vectored vaccines, alphavirus replicons, and sub-unit protein vaccines. Several of these novel candidates will be discussed.

  17. Next-generation dengue vaccines: novel strategies currently under development.

    Science.gov (United States)

    Durbin, Anna P; Whitehead, Stephen S

    2011-10-01

    Dengue has become the most important arboviral infection worldwide with more than 30 million cases of dengue fever estimated to occur each year. The need for a dengue vaccine is great and several live attenuated dengue candidate vaccines are proceeding through clinical evaluation. The need to induce a balanced immune response against all four DENV serotypes with a single vaccine has been a challenge for dengue vaccine developers. A live attenuated DENV chimeric vaccine produced by Sanofi Pasteur has recently entered Phase III evaluation in numerous dengue-endemic regions of the world. Viral interference between serotypes contained in live vaccines has required up to three doses of the vaccine be given over a 12-month period of time. For this reason, novel DENV candidate vaccines are being developed with the goal of achieving a protective immune response with an immunization schedule that can be given over the course of a few months. These next-generation candidates include DNA vaccines, recombinant adenovirus vectored vaccines, alphavirus replicons, and sub-unit protein vaccines. Several of these novel candidates will be discussed.

  18. Laser peening applications for next generation of nuclear power facilities

    International Nuclear Information System (INIS)

    Rankin, J.; Truong, C.; Walter, M.; Chen, H.-L.; Hackel, L.

    2008-01-01

    Generation of electricity by nuclear power can assist in achieving goals of reduced greenhouse gas emissions. Increased safety and reliability are necessary attributes of any new nuclear power plants. High pressure, hot water and radiation contribute to operating environments where Stress Corrosion Cracking (SCC) and hydrogen embrittlement can lead to potential component failures. Desire for improved steam conversion efficiency pushes the fatigue stress limits of turbine blades and other rotating equipment. For nuclear reactor facilities now being designed and built and for the next generations of designs, laser peening could be incorporated to provide significant performance life to critical subsystems and components making them less susceptible to fatigue, SCC and radiation induced embrittlement. These types of components include steam turbine blades, hubs and bearings as well as reactor components including cladding material, housings, welded assemblies, fittings, pipes, flanges, vessel penetrations, nuclear waste storage canisters. Laser peening has proven to be a commercial success in aerospace applications and has recently been put into use for gas and steam turbine generators and light water reactors. An expanded role for this technology for the broader nuclear power industry would be a beneficial extension. (author)

  19. Next Generation Space Telescope Integrated Science Module Data System

    Science.gov (United States)

    Schnurr, Richard G.; Greenhouse, Matthew A.; Jurotich, Matthew M.; Whitley, Raymond; Kalinowski, Keith J.; Love, Bruce W.; Travis, Jeffrey W.; Long, Knox S.

    1999-01-01

    The Data system for the Next Generation Space Telescope (NGST) Integrated Science Module (ISIM) is the primary data interface between the spacecraft, telescope, and science instrument systems. This poster includes block diagrams of the ISIM data system and its components derived during the pre-phase A Yardstick feasibility study. The poster details the hardware and software components used to acquire and process science data for the Yardstick instrument compliment, and depicts the baseline external interfaces to science instruments and other systems. This baseline data system is a fully redundant, high performance computing system. Each redundant computer contains three 150 MHz power PC processors. All processors execute a commercially available real time multi-tasking operating system supporting, preemptive multi-tasking, file management and network interfaces. These six processors in the system are networked together. The spacecraft interface baseline is an extension of the network, which links the six processors. The final selection for Processor busses, processor chips, network interfaces, and high-speed data interfaces will be made during mid 2002.

  20. Benchmarking of electrolyte mass transport in next generation lithium batteries

    Directory of Open Access Journals (Sweden)

    Jonas Lindberg

    2017-12-01

    Full Text Available Beyond conductivity and viscosity, little is often known about the mass transport properties of next generation lithium battery electrolytes, thus, making performance estimation uncertain when concentration gradients are present, as conductivity only describes performance in the absence of these gradients. This study experimentally measured the diffusion resistivity, originating from voltage loss due to a concentration gradient, together with the ohmic resistivity, obtained from ionic conductivity measurements, hence, evaluating electrolytes both with and without the presence of concentration gradients. Under galvanostatic conditions, the concentration gradients, of all electrolytes examined, developed quickly and the diffusion resistivity rapidly dominated the ohmic resistivity. The electrolytes investigated consisted of lithium salt in: room temperature ionic liquids (RTIL, RTIL mixed organic carbonates, dimethyl sulfoxide (DMSO, and a conventional Li-ion battery electrolyte. At steady state the RTIL electrolytes displayed a diffusion resistivity ~ 20 times greater than the ohmic resistivity. The DMSO-based electrolyte showed mass transport properties similar to the conventional Li-ion battery electrolyte. In conclusion, the results presented in this study show that the diffusion polarization must be considered in applications where high energy and power density are desired.

  1. The Next-Generation Very Large Array: Technical Overview

    Science.gov (United States)

    McKinnon, Mark; Selina, Rob

    2018-01-01

    As part of its mandate as a national observatory, the NRAO is looking toward the long range future of radio astronomy and fostering the long term growth of the US astronomical community. NRAO has sponsored a series of science and technical community meetings to consider the science mission and design of a next-generation Very Large Array (ngVLA), building on the legacies of the Atacama Large Millimeter/submillimeter Array (ALMA) and the Very Large Array (VLA).The basic ngVLA design emerging from these discussions is an interferometric array with approximately ten times the sensitivity and ten times higher spatial resolution than the VLA and ALMA radio telescopes, optimized for operation in the wavelength range 0.3cm to 3cm. The ngVLA would open a new window on the Universe through ultra-sensitive imaging of thermal line and continuum emission down to milli-arcsecond resolution, as well as unprecedented broadband continuum polarimetric imaging of non-thermal processes. The specifications and concepts for major ngVLA system elements are rapidly converging.We will provide an overview of the current system design of the ngVLA. The concepts for major system elements such as the antenna, receiving electronics, and central signal processing will be presented. We will also describe the major development activities that are presently underway to advance the design.

  2. Analysis Tools for Next-Generation Hadron Spectroscopy Experiments

    Science.gov (United States)

    Battaglieri, M.; Briscoe, B. J.; Celentano, A.; Chung, S.-U.; D'Angelo, A.; De Vita, R.; Döring, M.; Dudek, J.; Eidelman, S.; Fegan, S.; Ferretti, J.; Filippi, A.; Fox, G.; Galata, G.; García-Tecocoatzi, H.; Glazier, D. I.; Grube, B.; Hanhart, C.; Hoferichter, M.; Hughes, S. M.; Ireland, D. G.; Ketzer, B.; Klein, F. J.; Kubis, B.; Liu, B.; Masjuan, P.; Mathieu, V.; McKinnon, B.; Mitchel, R.; Nerling, F.; Paul, S.; Peláez, J. R.; Rademacker, J.; Rizzo, A.; Salgado, C.; Santopinto, E.; Sarantsev, A. V.; Sato, T.; Schlüter, T.; [Silva]da Silva, M. L. L.; Stankovic, I.; Strakovsky, I.; Szczepaniak, A.; Vassallo, A.; Walford, N. K.; Watts, D. P.; Zana, L.

    The series of workshops on New Partial-Wave Analysis Tools for Next-Generation Hadron Spectroscopy Experiments was initiated with the ATHOS 2012 meeting, which took place in Camogli, Italy, June 20-22, 2012. It was followed by ATHOS 2013 in Kloster Seeon near Munich, Germany, May 21-24, 2013. The third, ATHOS3, meeting is planned for April 13-17, 2015 at The George Washington University Virginia Science and Technology Campus, USA. The workshops focus on the development of amplitude analysis tools for meson and baryon spectroscopy, and complement other programs in hadron spectroscopy organized in the recent past including the INT-JLab Workshop on Hadron Spectroscopy in Seattle in 2009, the International Workshop on Amplitude Analysis in Hadron Spectroscopy at the ECT*-Trento in 2011, the School on Amplitude Analysis in Modern Physics in Bad Honnef in 2011, the Jefferson Lab Advanced Study Institute Summer School in 2012, and the School on Concepts of Modern Amplitude Analysis Techniques in Flecken-Zechlin near Berlin in September 2013. The aim of this document is to summarize the discussions that took place at the ATHOS 2012 and ATHOS 2013 meetings. We do not attempt a comprehensive review of the field of amplitude analysis, but offer a collection of thoughts that we hope may lay the ground for such a document.

  3. Analysis Tools for Next-Generation Hadron Spectroscopy Experiments

    International Nuclear Information System (INIS)

    Battaglieri, Marco; Briscoe, William; Celentano, Andrea; Chung, Suh-Urk; D'Angelo, Annalisa; De Vita, Rafaella; Döring, Michael; Dudek, Jozef; Eidelman, S.; Fegan, Stuart; Ferretti, J.; Filippi, A.; Fox, G.; Galata, G.; Garcia-Tecocoatzi, H.; Glazier, Derek; Grube, B.; Hanhart, C.; Hoferichter, M.; Hughes, S. M.; Ireland, David G.; Ketzer, B.; Klein, Franz J.; Kubis, B.; Liu, B.; Masjuan, P.; Mathieu, Vincent; McKinnon, Brian; Mitchel, R.; Nerling, F.; Paul, S.; Peláez, J. R.; Rademacker, J.; Rizzo, Alessandro; Salgado, Carlos; Santopinto, E.; Sarantsev, Andrey V.; Sato, Toru; Schlüter, T.; Da Silva, M. L.L.; Stankovic, I.; Strakovsky, Igor; Szczepaniak, Adam; Vassallo, A.; Walford, Natalie K.; Watts, Daniel P.

    2015-01-01

    The series of workshops on New Partial-Wave Analysis Tools for Next-Generation Hadron Spectroscopy Experiments was initiated with the ATHOS 2012 meeting, which took place in Camogli, Italy, June 20-22, 2012. It was followed by ATHOS 2013 in Kloster Seeon near Munich, Germany, May 21-24, 2013. The third, ATHOS3, meeting is planned for April 13-17, 2015 at The George Washington University Virginia Science and Technology Campus, USA. The workshops focus on the development of amplitude analysis tools for meson and baryon spectroscopy, and complement other programs in hadron spectroscopy organized in the recent past including the INT-JLab Workshop on Hadron Spectroscopy in Seattle in 2009, the International Workshop on Amplitude Analysis in Hadron Spectroscopy at the ECT*-Trento in 2011, the School on Amplitude Analysis in Modern Physics in Bad Honnef in 2011, the Jefferson Lab Advanced Study Institute Summer School in 2012, and the School on Concepts of Modern Amplitude Analysis Techniques in Flecken-Zechlin near Berlin in September 2013. The aim of this document is to summarize the discussions that took place at the ATHOS 2012 and ATHOS 2013 meetings. We do not attempt a comprehensive review of the field of amplitude analysis, but offer a collection of thoughts that we hope may lay the ground for such a document

  4. Next-generation sequence analysis of cancer xenograft models.

    Directory of Open Access Journals (Sweden)

    Fernando J Rossello

    Full Text Available Next-generation sequencing (NGS studies in cancer are limited by the amount, quality and purity of tissue samples. In this situation, primary xenografts have proven useful preclinical models. However, the presence of mouse-derived stromal cells represents a technical challenge to their use in NGS studies. We examined this problem in an established primary xenograft model of small cell lung cancer (SCLC, a malignancy often diagnosed from small biopsy or needle aspirate samples. Using an in silico strategy that assign reads according to species-of-origin, we prospectively compared NGS data from primary xenograft models with matched cell lines and with published datasets. We show here that low-coverage whole-genome analysis demonstrated remarkable concordance between published genome data and internal controls, despite the presence of mouse genomic DNA. Exome capture sequencing revealed that this enrichment procedure was highly species-specific, with less than 4% of reads aligning to the mouse genome. Human-specific expression profiling with RNA-Seq replicated array-based gene expression experiments, whereas mouse-specific transcript profiles correlated with published datasets from human cancer stroma. We conclude that primary xenografts represent a useful platform for complex NGS analysis in cancer research for tumours with limited sample resources, or those with prominent stromal cell populations.

  5. Persona: Network Layer Anonymity and Accountability for Next Generation Internet

    Science.gov (United States)

    Mallios, Yannis; Modi, Sudeep; Agarwala, Aditya; Johns, Christina

    Individual privacy has become a major concern, due to the intrusive nature of the services and websites that collect increasing amounts of private information. One of the notions that can lead towards privacy protection is that of anonymity. Unfortunately, anonymity can also be maliciously exploited by attackers to hide their actions and identity. Thus some sort of accountability is also required. The current Internet has failed to provide both properties, as anonymity techniques are difficult to fully deploy and thus are easily attacked, while the Internet provides limited level of accountability. The Next Generation Internet (NGI) provides us with the opportunity to examine how these conflicting properties could be efficiently applied and thus protect users’ privacy while holding malicious users accountable. In this paper we present the design of a scheme, called Persona that can provide anonymity and accountability in the network layer of NGI. More specifically, our design requirements are to combine these two conflicting desires in a stateless manner within routers. Persona allows users to choose different levels of anonymity, while it allows the discovery of malicious nodes.

  6. Address Translation Problems in IMS Based Next Generation Networks

    Directory of Open Access Journals (Sweden)

    Balazs Godor

    2006-01-01

    Full Text Available The development of packed based multimedia networks reached a turning point when the ITU-T and the ETSIhave incorporated the IMS to the NGN. With the fast development of mobile communication more and more services andcontent are available. In contrast with fix network telephony both the services and the devices are personalized in the “mobileworld”. Services, known from the Internet - like e-mail, chat, browsing, presence, etc. – are already available via mobiledevices as well. The IMS originally wanted to exploit both the benefits of mobile networks and the fancy services of theInternet. But today it is already more than that. IMS is the core of the next generation telecommunication networks and abasis for fix-mobile convergent services. The fact however that IMS was originally a “mobile” standard, where IPv6 was notoddity generated some problems for the fix networks, where IPv4 is used. In this article I give an overview of these problemsand mention some solutions as well.

  7. Four Corners project experience - Applications to next generation FGD

    International Nuclear Information System (INIS)

    Wild, R.L.; Grimes, R.L.; Wiggins, D.S.

    1990-01-01

    In June 1984, Arizona Public Service Company started up the flue gas desulfurization system installed on Units 4 and 5 at the Four Corners Power Station. At the time, this represented the largest emissions control retrofit in the industry, and consisted of two 800 MWe units. These units burn a low sulfur subbituminous coal from the adjacent Navajo mine. The FGD system was designed for 72% overall removal, with partial bypass. The SO 2 absorbers were designed for 90% removal. This FGD system is considered to be a second generation design. At the time, it represented state-of-the-art of FGD technology, in terms of both process considerations and materials of construction. In the six years since startup, several modifications have been made in the areas of process chemistry, equipment configuration, and materials of construction. These modifications are applicable to the next generation of FGD systems which will be designed in response to Acid Rain Legislation. This paper presents the original plant design basis, summarizes the operating experience to date, and identifies the modifications and improvements which have been made since startup. In addition, recommendations for new installations are offered

  8. Nuclear power - strategic planning for the next generation

    International Nuclear Information System (INIS)

    Turner, K.H.

    1989-01-01

    Regardless of the real or perceived causes of the nuclear power industry's current difficulties, a number of recent trends-increasing electricity demand, foreign oil dependency, and attention paid to acid rain and the greenhouse effect-taken together, point of the most favorable atmosphere in recent history for nuclear power. Already, serious public discussion of its advantages have begun anew. Thus, the time is ripe to consider the developmental structure of nuclear power's next generation. Although much uncertainty still surrounds the nuclear industry, valuable lessons have been learned, and the evolution of the industry from this point cannot be left to chance. The purpose of this paper is to discuss a framework for nuclear power strategic planning activities. The strategic planning objectives outlined in this paper span issues that affect virtually every aspect of the nuclear power industry. Piecemeal responses to the vagaries of random stimuli will not be adequate. A proactive, integrated, industry-wide initiative-an Institute of Nuclear Power Planning, actively supported by the members of the industry-should be undertaken immediately to fill the strategic planning role. In so doing, the industry will not only be acting in its own best interest but will also be helping the nation realize the real and important benefits of its nuclear power technology

  9. Next generation sequencing and its applications in forensic genetics.

    Science.gov (United States)

    Børsting, Claus; Morling, Niels

    2015-09-01

    It has been almost a decade since the first next generation sequencing (NGS) technologies emerged and quickly changed the way genetic research is conducted. Today, full genomes are mapped and published almost weekly and with ever increasing speed and decreasing costs. NGS methods and platforms have matured during the last 10 years, and the quality of the sequences has reached a level where NGS is used in clinical diagnostics of humans. Forensic genetic laboratories have also explored NGS technologies and especially in the last year, there has been a small explosion in the number of scientific articles and presentations at conferences with forensic aspects of NGS. These contributions have demonstrated that NGS offers new possibilities for forensic genetic case work. More information may be obtained from unique samples in a single experiment by analyzing combinations of markers (STRs, SNPs, insertion/deletions, mRNA) that cannot be analyzed simultaneously with the standard PCR-CE methods used today. The true variation in core forensic STR loci has been uncovered, and previously unknown STR alleles have been discovered. The detailed sequence information may aid mixture interpretation and will increase the statistical weight of the evidence. In this review, we will give an introduction to NGS and single-molecule sequencing, and we will discuss the possible applications of NGS in forensic genetics. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

  10. Toward green next-generation passive optical networks

    Science.gov (United States)

    Srivastava, Anand

    2015-01-01

    Energy efficiency has become an increasingly important aspect of designing access networks, due to both increased concerns for global warming and increased network costs related to energy consumption. Comparing access, metro, and core, the access constitutes a substantial part of the per subscriber network energy consumption and is regarded as the bottleneck for increased network energy efficiency. One of the main opportunities for reducing network energy consumption lies in efficiency improvements of the customer premises equipment. Access networks in general are designed for low utilization while supporting high peak access rates. The combination of large contribution to overall network power consumption and low Utilization implies large potential for CPE power saving modes where functionality is powered off during periods of idleness. Next-generation passive optical network, which is considered one of the most promising optical access networks, has notably matured in the past few years and is envisioned to massively evolve in the near future. This trend will increase the power requirements of NG-PON and make it no longer coveted. This paper will first provide a comprehensive survey of the previously reported studies on tackling this problem. A novel solution framework is then introduced, which aims to explore the maximum design dimensions and achieve the best possible power saving while maintaining the QoS requirements for each type of service.

  11. Control technology for nuclear power system of next generation

    International Nuclear Information System (INIS)

    1995-01-01

    This report is the summary of the results obtained by the investigation activities for two years carried out by the expert committee on investigation of control technology for nuclear power system of next generation. The course of investigation is outlined, and as the results, as advanced control technologies, adaptive control. H sub (infinite) control, fuzzy control and the application of autonomous distributed system and genetic algorithm to control; as operation support technology, the operation and monitoring system for nuclear power plants and safety support system; as interface technology which is the basic technology of them, virtual reality, multimedia and so on; further, various problems due to human factors, computer technology, artificial intelligence and others were taken up, and the grasp of the present status and the future subjects was carried out, including the information in international conferences. The items of the investigation are roughly divided into measurement and control technologies, interface technology and operation support, human factors, computer technology and artificial intelligence, and the trend in foreign countries, and the results of investigation for respective items are reported. (K.I.)

  12. A next generation field-portable goniometer system

    Science.gov (United States)

    Harms, Justin D.; Bachmann, Charles M.; Faulring, Jason W.; Ruiz Torres, Andres J.

    2016-05-01

    Various field portable goniometers have been designed to capture in-situ measurements of a materials bi-directional reflectance distribution function (BRDF), each with a specific scientific purpose in mind.1-4 The Rochester Institute of Technology's (RIT) Chester F. Carlson Center for Imaging Science recently created a novel instrument incorporating a wide variety of features into one compact apparatus in order to obtain very high accuracy BRDFs of short vegetation and sediments, even in undesirable conditions and austere environments. This next generation system integrates a dual-view design using two VNIR/SWIR pectroradiometers to capture target reflected radiance, as well as incoming radiance, to provide for better optical accuracy when measuring in non-ideal atmospheric conditions or when background illumination effects are non-negligible. The new, fully automated device also features a laser range finder to construct a surface roughness model of the target being measured, which enables the user to include inclination information into BRDF post-processing and further allows for roughness effects to be better studied for radiative transfer modeling. The highly portable design features automatic leveling, a precision engineered frame, and a variable measurement plane that allow for BRDF measurements on rugged, un-even terrain while still maintaining true angular measurements with respect to the target, all without sacrificing measurement speed. Despite the expanded capabilities and dual sensor suite, the system weighs less than 75 kg, which allows for excellent mobility and data collection on soft, silty clay or fine sand.

  13. Next Generation Driver for Attosecond and Laser-plasma Physics.

    Science.gov (United States)

    Rivas, D E; Borot, A; Cardenas, D E; Marcus, G; Gu, X; Herrmann, D; Xu, J; Tan, J; Kormin, D; Ma, G; Dallari, W; Tsakiris, G D; Földes, I B; Chou, S-W; Weidman, M; Bergues, B; Wittmann, T; Schröder, H; Tzallas, P; Charalambidis, D; Razskazovskaya, O; Pervak, V; Krausz, F; Veisz, L

    2017-07-12

    The observation and manipulation of electron dynamics in matter call for attosecond light pulses, routinely available from high-order harmonic generation driven by few-femtosecond lasers. However, the energy limitation of these lasers supports only weak sources and correspondingly linear attosecond studies. Here we report on an optical parametric synthesizer designed for nonlinear attosecond optics and relativistic laser-plasma physics. This synthesizer uniquely combines ultra-relativistic focused intensities of about 10 20  W/cm 2 with a pulse duration of sub-two carrier-wave cycles. The coherent combination of two sequentially amplified and complementary spectral ranges yields sub-5-fs pulses with multi-TW peak power. The application of this source allows the generation of a broad spectral continuum at 100-eV photon energy in gases as well as high-order harmonics in relativistic plasmas. Unprecedented spatio-temporal confinement of light now permits the investigation of electric-field-driven electron phenomena in the relativistic regime and ultimately the rise of next-generation intense isolated attosecond sources.

  14. StarTrax --- The Next Generation User Interface

    Science.gov (United States)

    Richmond, Alan; White, Nick

    StarTrax is a software package to be distributed to end users for installation on their local computing infrastructure. It will provide access to many services of the HEASARC, i.e. bulletins, catalogs, proposal and analysis tools, initially for the ROSAT MIPS (Mission Information and Planning System), later for the Next Generation Browse. A user activating the GUI will reach all HEASARC capabilities through a uniform view of the system, independent of the local computing environment and of the networking method of accessing StarTrax. Use it if you prefer the point-and-click metaphor of modern GUI technology, to the classical command-line interfaces (CLI). Notable strengths include: easy to use; excellent portability; very robust server support; feedback button on every dialog; painstakingly crafted User Guide. It is designed to support a large number of input devices including terminals, workstations and personal computers. XVT's Portability Toolkit is used to build the GUI in C/C++ to run on: OSF/Motif (UNIX or VMS), OPEN LOOK (UNIX), or Macintosh, or MS-Windows (DOS), or character systems.

  15. Comparison of DNA Quantification Methods for Next Generation Sequencing.

    Science.gov (United States)

    Robin, Jérôme D; Ludlow, Andrew T; LaRanger, Ryan; Wright, Woodring E; Shay, Jerry W

    2016-04-06

    Next Generation Sequencing (NGS) is a powerful tool that depends on loading a precise amount of DNA onto a flowcell. NGS strategies have expanded our ability to investigate genomic phenomena by referencing mutations in cancer and diseases through large-scale genotyping, developing methods to map rare chromatin interactions (4C; 5C and Hi-C) and identifying chromatin features associated with regulatory elements (ChIP-seq, Bis-Seq, ChiA-PET). While many methods are available for DNA library quantification, there is no unambiguous gold standard. Most techniques use PCR to amplify DNA libraries to obtain sufficient quantities for optical density measurement. However, increased PCR cycles can distort the library's heterogeneity and prevent the detection of rare variants. In this analysis, we compared new digital PCR technologies (droplet digital PCR; ddPCR, ddPCR-Tail) with standard methods for the titration of NGS libraries. DdPCR-Tail is comparable to qPCR and fluorometry (QuBit) and allows sensitive quantification by analysis of barcode repartition after sequencing of multiplexed samples. This study provides a direct comparison between quantification methods throughout a complete sequencing experiment and provides the impetus to use ddPCR-based quantification for improvement of NGS quality.

  16. Next generation reactor development activity at Hitachi, Ltd

    International Nuclear Information System (INIS)

    Yamashita, Junichi

    2005-01-01

    Developments of innovative nuclear systems in Japan have been highly requested to cope with uncertain future nuclear power generation and fuel cycle situation. Next generation reactor system shall be surely deployed earlier to be capable to provide with several options such as plutonium multi-recycle, intermediate storage of spent fuels, simplified reprocessing of spent fuels and separated storage of 'Pu+FP' and 'U', spent fuels storage after Pu LWR recycle and their combinations, while future reactor system will be targeted at ideal fuel recycle system of higher breeding gain and transmutation of radioactive wastes. Modified designs of the ABWR at large size and medium and small size have been investigated as well as a BWR based RMWR and a supercritical-pressure LWR to ensure safety and improve economics. Advanced fuel cycle technologies of a combination of fluoride volatility process and PUREX process with high decontamination (FLUOREX process) and a modified fluoride volatility process with low decontamination have been developed. (T. Tanaka)

  17. The human factors issue in the next generation nuclear plants

    International Nuclear Information System (INIS)

    Noviello, L.; Bolognini, G.; Nobile, M.

    1992-01-01

    The national Energy Plan approved by the Italian Government in 1988, soon after the public referendum on nuclear issues held in the wake of the Chernobyl accident, requested the start of a research program to study next generation nuclear plants. These new reactors should feature some important and innovative characteristics to have a chance to be considered for future constructions, should the politicians decide the conditions for such a step are again re-established in Italy. The most important of these characteristics is certainly the fact that no evaluation nor land set a-side shall be required even in case of the most severe conceivable accident. This challenging objective should be reached through: a) the simplification of the nuclear plant as a whole b) the extensive use of passive components and/or inherent safety features in the design of the engineering safeguard systems c) a containment designed to cope with any conceivable accident sequence without releasing any major quantity of radioactive products into the environment. d) the upgrading of the man-machine interface and the introduction of computerized aids both for operational and maintenance activities. This paper deals in particular with the improvements, described in point d), that aim at greatly reducing the probability of human errors, widely recognized as one of the most important aspects to be pursued to increase nuclear plant safety. (author)

  18. Rucio, the next-generation Data Management system in ATLAS

    Science.gov (United States)

    Serfon, C.; Barisits, M.; Beermann, T.; Garonne, V.; Goossens, L.; Lassnig, M.; Nairz, A.; Vigne, R.; ATLAS Collaboration

    2016-04-01

    Rucio is the next-generation of Distributed Data Management (DDM) system benefiting from recent advances in cloud and ;Big Data; computing to address HEP experiments scaling requirements. Rucio is an evolution of the ATLAS DDM system Don Quixote 2 (DQ2), which has demonstrated very large scale data management capabilities with more than 160 petabytes spread worldwide across 130 sites, and accesses from 1,000 active users. However, DQ2 is reaching its limits in terms of scalability, requiring a large number of support staff to operate and being hard to extend with new technologies. Rucio addresses these issues by relying on new technologies to ensure system scalability, cover new user requirements and employ new automation framework to reduce operational overheads. This paper shows the key concepts of Rucio, details the Rucio design, and the technology it employs, the tests that were conducted to validate it and finally describes the migration steps that were conducted to move from DQ2 to Rucio.

  19. Rucio, the next-generation Data Management system in ATLAS

    CERN Document Server

    Serfon, C; Beermann, T; Garonne, V; Goossens, L; Lassnig, M; Nairz, A; Vigne, R

    2016-01-01

    Rucio is the next-generation of Distributed Data Management (DDM) system benefiting from recent advances in cloud and "Big Data" computing to address HEP experiments scaling requirements. Rucio is an evolution of the ATLAS DDM system Don Quijote 2 (DQ2), which has demonstrated very large scale data management capabilities with more than 160 petabytes spread worldwide across 130 sites, and accesses from 1,000 active users. However, DQ2 is reaching its limits in terms of scalability, requiring a large number of support staff to operate and being hard to extend with new technologies. Rucio addresses these issues by relying on new technologies to ensure system scalability, cover new user requirements and employ new automation framework to reduce operational overheads. This paper shows the key concepts of Rucio, details the Rucio design, and the technology it employs, the tests that were conducted to validate it and finally describes the migration steps that were conducted to move from DQ2 to Rucio.

  20. Rucio, the next-generation Data Management system in ATLAS

    CERN Document Server

    Serfon, C; The ATLAS collaboration; Beermann, T; Garonne, V; Goossens, L; Lassnig, M; Nairz, A; Vigne, R

    2014-01-01

    Rucio is the next-generation of Distributed Data Management (DDM) system benefiting from recent advances in cloud and "Big Data" computing to address HEP experiments scaling requirements. Rucio is an evolution of the ATLAS DDM system Don Quijote 2 (DQ2), which has demonstrated very large scale data management capabilities with more than 160 petabytes spread worldwide across 130 sites, and accesses from 1,000 active users. However, DQ2 is reaching its limits in terms of scalability, requiring a large number of support staff to operate and being hard to extend with new technologies. Rucio addresses these issues by relying on new technologies to ensure system scalability, cover new user requirements and employ new automation framework to reduce operational overheads. In this talk, we will present the history of the DDM project and the experience of data management operation in ATLAS computing. Thus, We will show the key concepts of Rucio, including its data organization. The Rucio design, and the technology it e...

  1. Molecular Characterization of Transgenic Events Using Next Generation Sequencing Approach.

    Science.gov (United States)

    Guttikonda, Satish K; Marri, Pradeep; Mammadov, Jafar; Ye, Liang; Soe, Khaing; Richey, Kimberly; Cruse, James; Zhuang, Meibao; Gao, Zhifang; Evans, Clive; Rounsley, Steve; Kumpatla, Siva P

    2016-01-01

    Demand for the commercial use of genetically modified (GM) crops has been increasing in light of the projected growth of world population to nine billion by 2050. A prerequisite of paramount importance for regulatory submissions is the rigorous safety assessment of GM crops. One of the components of safety assessment is molecular characterization at DNA level which helps to determine the copy number, integrity and stability of a transgene; characterize the integration site within a host genome; and confirm the absence of vector DNA. Historically, molecular characterization has been carried out using Southern blot analysis coupled with Sanger sequencing. While this is a robust approach to characterize the transgenic crops, it is both time- and resource-consuming. The emergence of next-generation sequencing (NGS) technologies has provided highly sensitive and cost- and labor-effective alternative for molecular characterization compared to traditional Southern blot analysis. Herein, we have demonstrated the successful application of both whole genome sequencing and target capture sequencing approaches for the characterization of single and stacked transgenic events and compared the results and inferences with traditional method with respect to key criteria required for regulatory submissions.

  2. Molecular Characterization of Transgenic Events Using Next Generation Sequencing Approach.

    Directory of Open Access Journals (Sweden)

    Satish K Guttikonda

    Full Text Available Demand for the commercial use of genetically modified (GM crops has been increasing in light of the projected growth of world population to nine billion by 2050. A prerequisite of paramount importance for regulatory submissions is the rigorous safety assessment of GM crops. One of the components of safety assessment is molecular characterization at DNA level which helps to determine the copy number, integrity and stability of a transgene; characterize the integration site within a host genome; and confirm the absence of vector DNA. Historically, molecular characterization has been carried out using Southern blot analysis coupled with Sanger sequencing. While this is a robust approach to characterize the transgenic crops, it is both time- and resource-consuming. The emergence of next-generation sequencing (NGS technologies has provided highly sensitive and cost- and labor-effective alternative for molecular characterization compared to traditional Southern blot analysis. Herein, we have demonstrated the successful application of both whole genome sequencing and target capture sequencing approaches for the characterization of single and stacked transgenic events and compared the results and inferences with traditional method with respect to key criteria required for regulatory submissions.

  3. Design reliability assurance program for Korean next generation reactor

    International Nuclear Information System (INIS)

    Lee, Beom-Su; Han, Jin-Kyu; Na, Jang Hwan; Yoo, Kyung Yeong

    1997-01-01

    The Korean Next Generation Reactor (KNGR) project is to develop standardized nuclear power plant design for the construction of future nuclear power plants in Korea. The main purpose of the KNGR project is to develop the advanced nuclear power plants, which enhance safety and economics significantly through the incorporation of design concepts for severe accident prevention and mitigation, supplementary passive safety concept, simplification and application of modularization and so on. For those, Probabilistic Safety Assessment (PSA) and availability study will be performed at the early stage of the design, and the Design Reliability Assurance Program (D-RAP) is applied in the development of the KNGR to ensure that the safety and availability evaluated in the PSA and availability study at the early phase of the design is maintained through the detailed design, construction, procurement and operation of the plants. This paper presents the D-RAP concept that could be applied at the stage of the basic design of the nuclear power plants, based on the models for the reference plants and/or similar plants. 4 refs., 1 fig

  4. Integrating Communication and Navigation: Next Generation Broadcast Service (NGBS)

    Science.gov (United States)

    Donaldson, Jennifer

    2017-01-01

    NASA Goddard has been investing in technology demonstrations of a beacon service, now called Next Generation Broadcast Services (NGBS). NGBS is a global, space-based, communications and navigation service for users of Global Navigation Satellite Systems (GNSS) and the Tracking and Data Relay Satellite System (TDRSS). NGBS will provide an S-band beacon messaging source and radio navigation available to users at orbital altitudes 1400 km and below, increasing the autonomy and resiliency of onboard communication and navigation. NGBS will deliver both one-way radiometric (Doppler and pseudorange) and fast forward data transport services to users. Portions of the overall forward data volume will be allocated for fixed message types while the remaining data volume will be left for user forward command data. The NGBS signal will reside within the 2106.43 MHz spectrum currently allocated for the Space Networks multiple access forward (MAF) service and a live service demonstration is currently being planned via the 2nd and 3rd generation TDRS satellites.

  5. SpaceX's Dragon America's next generation spacecraft

    CERN Document Server

    Seedhouse, Erik

    2016-01-01

    This book describes Dragon V2, a futuristic vehicle that not only provides a means for NASA to transport its astronauts to the orbiting outpost but also advances SpaceX’s core objective of reusability. A direct descendant of Dragon, Dragon V2 can be retrieved, refurbished and re-launched. It is a spacecraft with the potential to completely revolutionize the economics of an industry where equipment costing hundreds of millions of dollars is routinely discarded after a single use. It was presented by SpaceX CEO Elon Musk in May 2014 as the spaceship that will carry NASA astronauts to the International Space Station as soon as 2016 SpaceX’s Dragon – America’s Next Generation Spacecraft describes the extraordinary feats of engineering and human achievement that have placed this revolutionary spacecraft at the forefront of the launch industry and positioned it as the precursor for ultimately transporting humans to Mars. It describes the design and development of Dragon, provides mission highlights of the f...

  6. Laser metrology for a next generation gravimetric mission

    Science.gov (United States)

    Mottini, Sergio; Biondetti, Giorgio; Cesare, Stefano; Castorina, Giuseppe; Musso, Fabio; Pisani, Marco; Leone, Bruno

    2017-11-01

    Within the ESA technology research project "Laser Interferometer High Precision tracking for LEO", Thales Alenia Space Italia is developing a laser metrology system for a Next Generation Gravimetric Mission (NGGM) based on satellite-to-satellite tracking. This technique is based on the precise measurement of the displacement between two satellites flying in formation at low altitude for monitoring the variations of Earth's gravity field at high resolution over a long time period. The laser metrology system that has been defined for this mission consists of the following elements: • an heterodyne Michelson interferometer for measuring the distance variation between retroreflectors positioned on the two satellites; • an angle metrology for measuring the orientation of the laser beam in the reference frames of the two satellites; • a lateral displacement metrology for measuring the deviations of the laser beam axis from the target retro-reflector. The laser interferometer makes use of a chopped measurement beam to avoid spurious signals and nonlinearity caused by the unbalance between the strong local beam and the weak return beam. The main results of the design, development and test activities performed on the breadboard of the metrology system are summarized in this paper.

  7. SAMSIN: the next-generation servo-manipulator

    International Nuclear Information System (INIS)

    Adams, R.H.; Jennrich, C.E.; Korpi, K.W.

    1985-01-01

    The Central Research Laboratories (CRL) Division of Sargent Industries is now developing SAMSIN, a next-generation servo-manipulator. SAMSIN is an acronym for Servo-Actuated Manipulator Systems with Intelligent Networks. This paper discusses the objectives of this development and describes the key features of the servo-manipulator system. There are three main objectives in the SAMSIN development: adaptability, reliability, and maintainability. SAMSIN utilizes standard Sargent/CRL sealed master and slave manipulator arms as well as newly developed compact versions. The mechanical arms have more than 20 yr of successful performance in industrial applications such as hot cells, high vacuums, fuel pools, and explosives handling. The servo-actuator package is in a protective enclosure, which may be sealed in various ways from the remote environment. The force limiting characteristics of the servo-actuators extend motion tendon life. Protective bootings increase the reliability of the arms in an environment that is high in airborne contamination. These bootings also simplify the decontamination of the system. The modularity in construction permits quick removal and replacement of slave arms, wrist joints, tong fingers, and actuator packages for maintenance. SAMSIN utilizes readily available off-the-shelf actuator and control system components. Each manipulator motion uses the same actuator and control system components

  8. Launching the Next Generation IODP Site Survey Data Bank

    Science.gov (United States)

    Miller, S. P.; Helly, J.; Clark, D.; Eakins, B.; Sutton, D.; Weatherford, J.; Thatch, G.; Miville, B.; Zelt, B.

    2005-12-01

    The next generation all-digital Site Survey Data Bank (SSDB) became operational on August 15, 2005 as an online resource for Integrated Ocean Drilling Program (IODP) proponents, reviewers, panels and operations, worldwide. There are currently 123 active proposals for drilling at sites distributed across the globe, involving nearly 1000 proponents from more than 40 countries. The goal is to provide an authoritative, persistent, secure, password-controlled and easily-used home for contributed data objects, as proposals evolve through their life cycle from preliminary phases to planned drilling expeditions. Proposal status can be monitored graphically by proposal number, data type or date. A Java SSDBviewer allows discovery of all proposal data objects, displayed over a basemap of global topography, crustal age or other custom maps. Data can be viewed or downloaded under password control. Webform interfaces assist with the uploading of data and metadata. Thirty four different standard data types are currently supported. The system was designed as a fully functioning digital library, not just a database or a web archive, drawing upon the resources of the SIOExplorer Digital Library project. Blocks of metadata are organized to support discovery and use, as appropriate for each data type. The SSDB has been developed by a UCSD team of researchers and computer scientists at the Scripps Institution of Oceanography and the San Diego Supercomputer Center, under contract with IODP Management International Inc., supported by NSF OCE 0432224.

  9. Somatic mutations in histiocytic sarcoma identified by next generation sequencing.

    Science.gov (United States)

    Liu, Qingqing; Tomaszewicz, Keith; Hutchinson, Lloyd; Hornick, Jason L; Woda, Bruce; Yu, Hongbo

    2016-08-01

    Histiocytic sarcoma is a rare malignant neoplasm of presumed hematopoietic origin showing morphologic and immunophenotypic evidence of histiocytic differentiation. Somatic mutation importance in the pathogenesis or disease progression of histiocytic sarcoma was largely unknown. To identify somatic mutations in histiocytic sarcoma, we studied 5 histiocytic sarcomas [3 female and 2 male patients; mean age 54.8 (20-72), anatomic sites include lymph node, uterus, and pleura] and matched normal tissues from each patient as germ line controls. Somatic mutations in 50 "Hotspot" oncogenes and tumor suppressor genes were examined using next generation sequencing. Three (out of five) histiocytic sarcoma cases carried somatic mutations in BRAF. Among them, G464V [variant frequency (VF) of 43.6 %] and G466R (VF of 29.6 %) located at the P loop potentially interfere with the hydrophobic interaction between P and activating loops and ultimately activation of BRAF. Also detected was BRAF somatic mutation N581S (VF of 7.4 %), which was located at the catalytic loop of BRAF kinase domain: its role in modifying kinase activity was unclear. A similar mutational analysis was also performed on nine acute monocytic/monoblastic leukemia cases, which did not identify any BRAF somatic mutations. Our study detected several BRAF mutations in histiocytic sarcomas, which may be important in understanding the tumorigenesis of this rare neoplasm and providing mechanisms for potential therapeutical opportunities.

  10. Next Generation Sequencing Methods for Diagnosis of Epilepsy Syndromes

    Directory of Open Access Journals (Sweden)

    Paul Dunn

    2018-02-01

    Full Text Available Epilepsy is a neurological disorder characterized by an increased predisposition for seizures. Although this definition suggests that it is a single disorder, epilepsy encompasses a group of disorders with diverse aetiologies and outcomes. A genetic basis for epilepsy syndromes has been postulated for several decades, with several mutations in specific genes identified that have increased our understanding of the genetic influence on epilepsies. With 70-80% of epilepsy cases identified to have a genetic cause, there are now hundreds of genes identified to be associated with epilepsy syndromes which can be analyzed using next generation sequencing (NGS techniques such as targeted gene panels, whole exome sequencing (WES and whole genome sequencing (WGS. For effective use of these methodologies, diagnostic laboratories and clinicians require information on the relevant workflows including analysis and sequencing depth to understand the specific clinical application and diagnostic capabilities of these gene sequencing techniques. As epilepsy is a complex disorder, the differences associated with each technique influence the ability to form a diagnosis along with an accurate detection of the genetic etiology of the disorder. In addition, for diagnostic testing, an important parameter is the cost-effectiveness and the specific diagnostic outcome of each technique. Here, we review these commonly used NGS techniques to determine their suitability for application to epilepsy genetic diagnostic testing.

  11. The Next Generation ARC Middleware and ATLAS Computing Model

    International Nuclear Information System (INIS)

    Filipčič, Andrej; Cameron, David; Konstantinov, Aleksandr; Karpenko, Dmytro; Smirnova, Oxana

    2012-01-01

    The distributed NDGF Tier-1 and associated NorduGrid clusters are well integrated into the ATLAS computing environment but follow a slightly different paradigm than other ATLAS resources. The current paradigm does not divide the sites as in the commonly used hierarchical model, but rather treats them as a single storage endpoint and a pool of distributed computing nodes. The next generation ARC middleware with its several new technologies provides new possibilities in development of the ATLAS computing model, such as pilot jobs with pre-cached input files, automatic job migration between the sites, integration of remote sites without connected storage elements, and automatic brokering for jobs with non-standard resource requirements. ARC's data transfer model provides an automatic way for the computing sites to participate in ATLAS’ global task management system without requiring centralised brokering or data transfer services. The powerful API combined with Python and Java bindings can easily be used to build new services for job control and data transfer. Integration of the ARC core into the EMI middleware provides a natural way to implement the new services using the ARC components

  12. Targeted next-generation sequencing in monogenic dyslipidemias.

    Science.gov (United States)

    Hegele, Robert A; Ban, Matthew R; Cao, Henian; McIntyre, Adam D; Robinson, John F; Wang, Jian

    2015-04-01

    To evaluate the potential clinical translation of high-throughput next-generation sequencing (NGS) methods in diagnosis and management of dyslipidemia. Recent NGS experiments indicate that most causative genes for monogenic dyslipidemias are already known. Thus, monogenic dyslipidemias can now be diagnosed using targeted NGS. Targeting of dyslipidemia genes can be achieved by either: designing custom reagents for a dyslipidemia-specific NGS panel; or performing genome-wide NGS and focusing on genes of interest. Advantages of the former approach are lower cost and limited potential to detect incidental pathogenic variants unrelated to dyslipidemia. However, the latter approach is more flexible because masking criteria can be altered as knowledge advances, with no need for re-design of reagents or follow-up sequencing runs. Also, the cost of genome-wide analysis is decreasing and ethical concerns can likely be mitigated. DNA-based diagnosis is already part of the clinical diagnostic algorithms for familial hypercholesterolemia. Furthermore, DNA-based diagnosis is supplanting traditional biochemical methods to diagnose chylomicronemia caused by deficiency of lipoprotein lipase or its co-factors. The increasing availability and decreasing cost of clinical NGS for dyslipidemia means that its potential benefits can now be evaluated on a larger scale.

  13. A Generalized Framework for Modeling Next Generation 911 Implementations.

    Energy Technology Data Exchange (ETDEWEB)

    Kelic, Andjelka; Aamir, Munaf Syed; Kelic, Andjelka; Jrad, Ahmad M.; Mitchell, Roger

    2018-02-01

    This document summarizes the current state of Sandia 911 modeling capabilities and then addresses key aspects of Next Generation 911 (NG911) architectures for expansion of existing models. Analysis of three NG911 implementations was used to inform heuristics , associated key data requirements , and assumptions needed to capture NG911 architectures in the existing models . Modeling of NG911 necessitates careful consideration of its complexity and the diversity of implementations. Draft heuristics for constructing NG911 models are pres ented based on the analysis along with a summary of current challenges and ways to improve future NG911 modeling efforts . We found that NG911 relies on E nhanced 911 (E911) assets such as 911 selective routers to route calls originating from traditional tel ephony service which are a majority of 911 calls . We also found that the diversity and transitional nature of NG911 implementations necessitates significant and frequent data collection to ensure that adequate model s are available for crisis action support .

  14. Preparing for the Next Generation of Direct Broadcast

    Science.gov (United States)

    Shin, H.; Friedman Dubey, K.; Baptiste, E.; Prasad, K.; Lawrence, D.

    2010-12-01

    With the anticipated launch of NPP, JPSS-1 and GOES-R in the next five years, the flow of weather data to users will rise ten times (Berchoff, 2009). This volume of data will put a strain on the government infrastructure tasked for data distribution, which could limit real-time data distribution to government users only, forcing others to retrieve their data days to weeks later. In order to receive real-time data, direct reception will become a necessity. SeaSpace Corporation has created a complete solution in anticipation of the forthcoming needs of data users. This solution is made up of four parts: 1) ground reception stations, 2) software to process the data into products, 3) data storage hardware, and 4) data cataloging software and server. The ground station component consists of two systems, an X/L/S-band tracking system and an L-band geostationary system. The combined X-, L-, and S-band reception capabilities are included to ensure the user can receive the maximum amount of data. The X-band receiver in this system can receive data from Terra, Aqua, NPP, JPSS, Oceansat-2, and FY-3. The L-band receiver can currently receive NOAA and MetOp. The follow-on to MetOp will be assigned the mid-morning orbit in the next generation constellation, ensuring L-band reception will continue to be a necessity. The S-band is used for DMSP reception, which may, in the near-future, become more widely available to non-defense clients. The L-band stationary antenna in the proposed solution is used for reception of geostationary satellites, such as GOES, COMS, and MTSAT. Upon launch, GOES-R data can be received with hardware/software upgrade. Once the data is received by the ground stations, TeraScan’s Rapid Environmental Processing System (REPS) automatically processes the data through level 3 products using the official NOAA and NASA algorithms. REPS can process large amounts of satellite data incredibly quickly: for instance, all MODIS products are produced in less than

  15. Advanced Combustion Systems for Next Generation Gas Turbines

    Energy Technology Data Exchange (ETDEWEB)

    Joel Haynes; Jonathan Janssen; Craig Russell; Marcus Huffman

    2006-01-01

    Next generation turbine power plants will require high efficiency gas turbines with higher pressure ratios and turbine inlet temperatures than currently available. These increases in gas turbine cycle conditions will tend to increase NOx emissions. As the desire for higher efficiency drives pressure ratios and turbine inlet temperatures ever higher, gas turbines equipped with both lean premixed combustors and selective catalytic reduction after treatment eventually will be unable to meet the new emission goals of sub-3 ppm NOx. New gas turbine combustors are needed with lower emissions than the current state-of-the-art lean premixed combustors. In this program an advanced combustion system for the next generation of gas turbines is being developed with the goal of reducing combustor NOx emissions by 50% below the state-of-the-art. Dry Low NOx (DLN) technology is the current leader in NOx emission technology, guaranteeing 9 ppm NOx emissions for heavy duty F class gas turbines. This development program is directed at exploring advanced concepts which hold promise for meeting the low emissions targets. The trapped vortex combustor is an advanced concept in combustor design. It has been studied widely for aircraft engine applications because it has demonstrated the ability to maintain a stable flame over a wide range of fuel flow rates. Additionally, it has shown significantly lower NOx emission than a typical aircraft engine combustor and with low CO at the same time. The rapid CO burnout and low NOx production of this combustor made it a strong candidate for investigation. Incremental improvements to the DLN technology have not brought the dramatic improvements that are targeted in this program. A revolutionary combustor design is being explored because it captures many of the critical features needed to significantly reduce emissions. Experimental measurements of the combustor performance at atmospheric conditions were completed in the first phase of the program

  16. De novo Ixodes ricinus salivary gland transcriptome analysis using two next-generation sequencing methodologies

    Czech Academy of Sciences Publication Activity Database

    Schwarz, Alexandra; von Reumont, B.M.; Erhart, Jan; Chagas, A. C.; Ribeiro, J.M.C.; Kotsyfakis, Michalis

    2013-01-01

    Roč. 27, č. 12 (2013), s. 4745-4756 ISSN 0892-6638 R&D Projects: GA ČR GAP502/12/2409 Institutional support: RVO:60077344 Keywords : cDNA * high-throughput annotation * molecular evolution * public database * tick feeding * tick life stages Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 5.480, year: 2013

  17. Implementing the Next Generation Science Standards: Impacts on Geoscience Education

    Science.gov (United States)

    Wysession, M. E.

    2014-12-01

    This is a critical time for the geoscience community. The Next Generation Science Standards (NGSS) have been released and are now being adopted by states (a dozen states and Washington, DC, at the time of writing this), with dramatic implications for national K-12 science education. Curriculum developers and textbook companies are working hard to construct educational materials that match the new standards, which emphasize a hands-on practice-based approach that focuses on working directly with primary data and other forms of evidence. While the set of 8 science and engineering practices of the NGSS lend themselves well to the observation-oriented approach of much of the geosciences, there is currently not a sufficient number of geoscience educational modules and activities geared toward the K-12 levels, and geoscience research organizations need to be mobilizing their education & outreach programs to meet this need. It is a rare opportunity that will not come again in this generation. There are other significant issues surrounding the implementation of the NGSS. The NGSS involves a year of Earth and space science at the high school level, but there does not exist a sufficient workforce is geoscience teachers to meet this need. The form and content of the geoscience standards are also very different from past standards, moving away from a memorization and categorization approach and toward a complex Earth Systems Science approach. Combined with the shift toward practice-based teaching, this means that significant professional development will therefore be required for the existing K-12 geoscience education workforce. How the NGSS are to be assessed is another significant question, with an NRC report providing some guidance but leaving many questions unanswered. There is also an uneasy relationship between the NGSS and the Common Core of math and English, and the recent push-back against the Common Core in many states may impact the implementation of the NGSS.

  18. The Next Generation of the Montage Image Mopsaic Engine

    Science.gov (United States)

    Berriman, G. Bruce; Good, John; Rusholme, Ben; Robitaille, Thomas

    2016-01-01

    We have released a major upgrade of the Montage image mosaic engine (http://montage.ipac.caltech.edu) , as part of a program to develop the next generation of the engine in response to the rapid changes in the data processing landscape in Astronomy, which is generating ever larger data sets in ever more complex formats . The new release (version 4) contains modules dedicated to creating and managing mosaics of data stored as multi-dimensional arrays ("data cubes"). The new release inherits the architectural benefits of portability and scalability of the original design. The code is publicly available on Git Hub and the Montage web page. The release includes a command line tool that supports visualization of large images, and the beta-release of a Python interface to the visualization tool. We will provide examples on how to use these these features. We are generating a mosaic of the Galactic Arecibo L-band Feed Array HI (GALFA-HI) Survey maps of neutral hydrogen in and around our Milky Way Galaxy, to assess the performance at scale and to develop tools and methodologies that will enable scientists inexpert in cloud processing to exploit could platforms for data processing and product generation at scale. Future releases include support for an R-tree based mechanism for fast discovery of and access to large data sets and on-demand access to calibrated SDSS DR9 data that exploits it; support for the Hierarchical Equal Area isoLatitude Pixelization (HEALPix) scheme, now standard for projects investigating cosmic background radiation (Gorski et al 2005); support fort the Tessellated Octahedral Adaptive Subdivision Transform (TOAST), the sky partitioning sky used by the WorldWide Telescope (WWT); and a public applications programming interface (API) in C that can be called from other languages, especially Python.

  19. Development of the next generation reactor analysis code system, MARBLE

    International Nuclear Information System (INIS)

    Yokoyama, Kenji; Hazama, Taira; Nagaya, Yasunobu; Chiba, Go; Kugo, Teruhiko; Ishikawa, Makoto; Tatsumi, Masahiro; Hirai, Yasushi; Hyoudou, Hideaki; Numata, Kazuyuki; Iwai, Takehiko; Jin, Tomoyuki

    2011-03-01

    A next generation reactor analysis code system, MARBLE, has been developed. MARBLE is a successor of the fast reactor neutronics analysis code systems, JOINT-FR and SAGEP-FR (conventional systems), which were developed for so-called JUPITER standard analysis methods. MARBLE has the equivalent analysis capability to the conventional system because MARBLE can utilize sub-codes included in the conventional system without any change. On the other hand, burnup analysis functionality for power reactors is improved compared with the conventional system by introducing models on fuel exchange treatment and control rod operation and so on. In addition, MARBLE has newly developed solvers and some new features of burnup calculation by the Krylov sub-space method and nuclear design accuracy evaluation by the extended bias factor method. In the development of MARBLE, the object oriented technology was adopted from the view-point of improvement of the software quality such as flexibility, expansibility, facilitation of the verification by the modularization and assistance of co-development. And, software structure called the two-layer system consisting of scripting language and system development language was applied. As a result, MARBLE is not an independent analysis code system which simply receives input and returns output, but an assembly of components for building an analysis code system (i.e. framework). Furthermore, MARBLE provides some pre-built analysis code systems such as the fast reactor neutronics analysis code system. SCHEME, which corresponds to the conventional code and the fast reactor burnup analysis code system, ORPHEUS. (author)

  20. ABrowse--a customizable next-generation genome browser framework.

    Science.gov (United States)

    Kong, Lei; Wang, Jun; Zhao, Shuqi; Gu, Xiaocheng; Luo, Jingchu; Gao, Ge

    2012-01-05

    With the rapid growth of genome sequencing projects, genome browser is becoming indispensable, not only as a visualization system but also as an interactive platform to support open data access and collaborative work. Thus a customizable genome browser framework with rich functions and flexible configuration is needed to facilitate various genome research projects. Based on next-generation web technologies, we have developed a general-purpose genome browser framework ABrowse which provides interactive browsing experience, open data access and collaborative work support. By supporting Google-map-like smooth navigation, ABrowse offers end users highly interactive browsing experience. To facilitate further data analysis, multiple data access approaches are supported for external platforms to retrieve data from ABrowse. To promote collaborative work, an online user-space is provided for end users to create, store and share comments, annotations and landmarks. For data providers, ABrowse is highly customizable and configurable. The framework provides a set of utilities to import annotation data conveniently. To build ABrowse on existing annotation databases, data providers could specify SQL statements according to database schema. And customized pages for detailed information display of annotation entries could be easily plugged in. For developers, new drawing strategies could be integrated into ABrowse for new types of annotation data. In addition, standard web service is provided for data retrieval remotely, providing underlying machine-oriented programming interface for open data access. ABrowse framework is valuable for end users, data providers and developers by providing rich user functions and flexible customization approaches. The source code is published under GNU Lesser General Public License v3.0 and is accessible at http://www.abrowse.org/. To demonstrate all the features of ABrowse, a live demo for Arabidopsis thaliana genome has been built at http://arabidopsis.cbi.edu.cn/.

  1. ABrowse - a customizable next-generation genome browser framework

    Science.gov (United States)

    2012-01-01

    Background With the rapid growth of genome sequencing projects, genome browser is becoming indispensable, not only as a visualization system but also as an interactive platform to support open data access and collaborative work. Thus a customizable genome browser framework with rich functions and flexible configuration is needed to facilitate various genome research projects. Results Based on next-generation web technologies, we have developed a general-purpose genome browser framework ABrowse which provides interactive browsing experience, open data access and collaborative work support. By supporting Google-map-like smooth navigation, ABrowse offers end users highly interactive browsing experience. To facilitate further data analysis, multiple data access approaches are supported for external platforms to retrieve data from ABrowse. To promote collaborative work, an online user-space is provided for end users to create, store and share comments, annotations and landmarks. For data providers, ABrowse is highly customizable and configurable. The framework provides a set of utilities to import annotation data conveniently. To build ABrowse on existing annotation databases, data providers could specify SQL statements according to database schema. And customized pages for detailed information display of annotation entries could be easily plugged in. For developers, new drawing strategies could be integrated into ABrowse for new types of annotation data. In addition, standard web service is provided for data retrieval remotely, providing underlying machine-oriented programming interface for open data access. Conclusions ABrowse framework is valuable for end users, data providers and developers by providing rich user functions and flexible customization approaches. The source code is published under GNU Lesser General Public License v3.0 and is accessible at http://www.abrowse.org/. To demonstrate all the features of ABrowse, a live demo for Arabidopsis thaliana genome

  2. SNAP: Small Next-generation Atmospheric Probe Concept

    Science.gov (United States)

    Sayanagi, K. M.; Dillman, R. A.; Atkinson, D. H.; Li, J.; Saikia, S.; Simon, A. A.; Spilker, T. R.; Wong, M. H.; Hope, D.

    2017-12-01

    We present a concept for a small, atmospheric probe that could be flexibly added to future missions that orbit or fly-by a giant planet as a secondary payload, which we call the Small Next-generation Atmospheric Probe (SNAP). SNAP's main scientific objectives are to determine the vertical distribution of clouds and cloud-forming chemical species, thermal stratification, and wind speed as a function of depth. As a case study, we present the advantages, cost and risk of adding SNAP to the future Uranus Orbiter and Probe flagship mission; in combination with the mission's main probe, SNAP would perform atmospheric in-situ measurements at a second location, and thus enable and enhance the scientific objectives recommended by the 2013 Planetary Science Decadal Survey and the 2014 NASA Science Plan to determine atmospheric spatial variabilities. We envision that the science objectives can be achieved with a 30-kg entry probe 0.5m in diameter (less than half the size of the Galileo probe) that reaches 5-bar pressure-altitude and returns data to Earth via the carrier spacecraft. As the baseline instruments, the probe will carry an Atmospheric Structure Instrument (ASI) that measures the temperature, pressure and acceleration, a carbon nanotube-based NanoChem atmospheric composition sensor, and an Ultra-Stable Oscillator (USO) to conduct a Doppler Wind Experiment (DWE). We also catalog promising technologies currently under development that will strengthen small atmospheric entry probe missions in the future. While SNAP is applicable to multiple planets, we examine the feasibility, benefits and impacts of adding SNAP to the Uranus Orbiter and Probe flagship mission. Our project is supported by NASA PSDS3 grant NNX17AK31G.

  3. Visual programming for next-generation sequencing data analytics.

    Science.gov (United States)

    Milicchio, Franco; Rose, Rebecca; Bian, Jiang; Min, Jae; Prosperi, Mattia

    2016-01-01

    High-throughput or next-generation sequencing (NGS) technologies have become an established and affordable experimental framework in biological and medical sciences for all basic and translational research. Processing and analyzing NGS data is challenging. NGS data are big, heterogeneous, sparse, and error prone. Although a plethora of tools for NGS data analysis has emerged in the past decade, (i) software development is still lagging behind data generation capabilities, and (ii) there is a 'cultural' gap between the end user and the developer. Generic software template libraries specifically developed for NGS can help in dealing with the former problem, whilst coupling template libraries with visual programming may help with the latter. Here we scrutinize the state-of-the-art low-level software libraries implemented specifically for NGS and graphical tools for NGS analytics. An ideal developing environment for NGS should be modular (with a native library interface), scalable in computational methods (i.e. serial, multithread, distributed), transparent (platform-independent), interoperable (with external software interface), and usable (via an intuitive graphical user interface). These characteristics should facilitate both the run of standardized NGS pipelines and the development of new workflows based on technological advancements or users' needs. We discuss in detail the potential of a computational framework blending generic template programming and visual programming that addresses all of the current limitations. In the long term, a proper, well-developed (although not necessarily unique) software framework will bridge the current gap between data generation and hypothesis testing. This will eventually facilitate the development of novel diagnostic tools embedded in routine healthcare.

  4. Next Generation Surfactants for Improved Chemical Flooding Technology

    Energy Technology Data Exchange (ETDEWEB)

    Laura Wesson; Prapas Lohateeraparp; Jeffrey Harwell; Bor-Jier Shiau

    2012-05-31

    The principle objective of this project was to characterize and test current and next generation high performance surfactants for improved chemical flooding technology, focused on reservoirs in the Pennsylvanian-aged (Penn) sands. In order to meet this objective the characteristic curvatures (Cc) of twenty-eight anionic surfactants selected for evaluation for use in chemical flooding formulations were determined. The Cc values ranged from -6.90 to 2.55 with the majority having negative values. Crude oil samples from nine Penn sand reservoirs were analyzed for several properties pertinent to surfactant formulation for EOR application. These properties included equivalent alkane carbon numbers, total acid numbers, and viscosity. The brine samples from these same reservoirs were analyzed for several cations and for total dissolved solids. Surfactant formulations were successfully developed for eight reservoirs by the end of the project period. These formulations were comprised of a tertiary mixture of anionic surfactants. The identities of these surfactants are considered proprietary, but suffice to say the surfactants in each mixture were comprised of varying chemical structures. In addition to the successful development of surfactant formulations for EOR, there were also two successful single-well field tests conducted. There are many aspects that must be considered in the development and implementation of effective surfactant formulations. Taking into account these other aspects, there were four additional studies conducted during this project. These studies focused on the effect of the stability of surfactant formulations in the presence of polymers with an associated examination of polymer rheology, the effect of the presence of iron complexes in the brine on surfactant stability, the potential use of sacrificial agents in order to minimize the loss of surfactant to adsorption, and the effect of electrolytes on surfactant adsorption. In these last four studies

  5. Authentication of Herbal Supplements Using Next-Generation Sequencing.

    Directory of Open Access Journals (Sweden)

    Natalia V Ivanova

    Full Text Available DNA-based testing has been gaining acceptance as a tool for authentication of a wide range of food products; however, its applicability for testing of herbal supplements remains contentious.We utilized Sanger and Next-Generation Sequencing (NGS for taxonomic authentication of fifteen herbal supplements representing three different producers from five medicinal plants: Echinacea purpurea, Valeriana officinalis, Ginkgo biloba, Hypericum perforatum and Trigonella foenum-graecum. Experimental design included three modifications of DNA extraction, two lysate dilutions, Internal Amplification Control, and multiple negative controls to exclude background contamination. Ginkgo supplements were also analyzed using HPLC-MS for the presence of active medicinal components.All supplements yielded DNA from multiple species, rendering Sanger sequencing results for rbcL and ITS2 regions either uninterpretable or non-reproducible between the experimental replicates. Overall, DNA from the manufacturer-listed medicinal plants was successfully detected in seven out of eight dry herb form supplements; however, low or poor DNA recovery due to degradation was observed in most plant extracts (none detected by Sanger; three out of seven-by NGS. NGS also revealed a diverse community of fungi, known to be associated with live plant material and/or the fermentation process used in the production of plant extracts. HPLC-MS testing demonstrated that Ginkgo supplements with degraded DNA contained ten key medicinal components.Quality control of herbal supplements should utilize a synergetic approach targeting both DNA and bioactive components, especially for standardized extracts with degraded DNA. The NGS workflow developed in this study enables reliable detection of plant and fungal DNA and can be utilized by manufacturers for quality assurance of raw plant materials, contamination control during the production process, and the final product. Interpretation of results should

  6. ABrowse - a customizable next-generation genome browser framework

    Directory of Open Access Journals (Sweden)

    Kong Lei

    2012-01-01

    Full Text Available Abstract Background With the rapid growth of genome sequencing projects, genome browser is becoming indispensable, not only as a visualization system but also as an interactive platform to support open data access and collaborative work. Thus a customizable genome browser framework with rich functions and flexible configuration is needed to facilitate various genome research projects. Results Based on next-generation web technologies, we have developed a general-purpose genome browser framework ABrowse which provides interactive browsing experience, open data access and collaborative work support. By supporting Google-map-like smooth navigation, ABrowse offers end users highly interactive browsing experience. To facilitate further data analysis, multiple data access approaches are supported for external platforms to retrieve data from ABrowse. To promote collaborative work, an online user-space is provided for end users to create, store and share comments, annotations and landmarks. For data providers, ABrowse is highly customizable and configurable. The framework provides a set of utilities to import annotation data conveniently. To build ABrowse on existing annotation databases, data providers could specify SQL statements according to database schema. And customized pages for detailed information display of annotation entries could be easily plugged in. For developers, new drawing strategies could be integrated into ABrowse for new types of annotation data. In addition, standard web service is provided for data retrieval remotely, providing underlying machine-oriented programming interface for open data access. Conclusions ABrowse framework is valuable for end users, data providers and developers by providing rich user functions and flexible customization approaches. The source code is published under GNU Lesser General Public License v3.0 and is accessible at http://www.abrowse.org/. To demonstrate all the features of ABrowse, a live demo for

  7. Training the Next Generation in Space Situational Awareness Research

    Science.gov (United States)

    Colpo, D.; Reddy, V.; Arora, S.; Tucker, S.; Jeffries, L.; May, D.; Bronson, R.; Hunten, E.

    Traditional academic SSA research has relied on commercial off the shelf (COTS) systems for collecting metric and lightcurve data. COTS systems have several advantages over a custom built system including cost, easy integration, technical support and short deployment timescales. We at the University of Arizona took an alternative approach to develop a sensor system for space object characterization. Five engineering students designed and built two 0.6-meter F/4 electro-optical (EO) systems for collecting lightcurve and spectral data. All the design and fabrication work was carried out over the course of two semesters as part f their senior design project that is mandatory for the completion of their bachelors in engineering degree. The students designed over 200 individual parts using three-dimensional modeling software (SolidWorks), and conducted detailed optical design analysis using raytracing software (ZEMAX), with oversight and advice from faculty sponsor and Starizona, a local small business in Tucson. The components of the design were verified by test, analysis, inspection, or demonstration, per the process that the University of Arizona requires for each of its design projects. Methods to complete this project include mechanical FEA, optical testing methods (Foucault Knife Edge Test and Couder Mask Test), tests to verify the function of the thermometers, and a final pointing model test. A surprise outcome of our exercise is that the entire cost of the design and fabrication of these two EO systems was significantly lower than a COTS alternative. With careful planning and coordination we were also able to reduce to the deployment times to those for a commercial system. Our experience shows that development of hardware and software for SSA research could be accomplished in an academic environment that would enable the training of the next generation with active support from local small businesses.

  8. Next Generation Space Surveillance System-of-Systems

    Science.gov (United States)

    McShane, B.

    2014-09-01

    International economic and military dependence on space assets is pervasive and ever-growing in an environment that is now congested, contested, and competitive. There are a number of natural and man-made risks that need to be monitored and characterized to protect and preserve the space environment and the assets within it. Unfortunately, today's space surveillance network (SSN) has gaps in coverage, is not resilient, and has a growing number of objects that get lost. Risks can be efficiently and effectively mitigated, gaps closed, resiliency improved, and performance increased within a next generation space surveillance network implemented as a system-of-systems with modern information architectures and analytic techniques. This also includes consideration for the newest SSN sensors (e.g. Space Fence) which are born Net-Centric out-of-the-box and able to seamlessly interface with the JSpOC Mission System, global information grid, and future unanticipated users. Significant opportunity exists to integrate legacy, traditional, and non-traditional sensors into a larger space system-of-systems (including command and control centers) for multiple clients through low cost sustainment, modification, and modernization efforts. Clients include operations centers (e.g. JSpOC, USSTRATCOM, CANSPOC), Intelligence centers (e.g. NASIC), space surveillance sensor sites (e.g. AMOS, GEODSS), international governments (e.g. Germany, UK), space agencies (e.g. NASA), and academic institutions. Each has differing priorities, networks, data needs, timeliness, security, accuracy requirements and formats. Enabling processes and technologies include: Standardized and type accredited methods for secure connections to multiple networks, machine-to-machine interfaces for near real-time data sharing and tip-and-queue activities, common data models for analytical processing across multiple radar and optical sensor types, an efficient way to automatically translate between differing client and

  9. Next Generation Nuclear Plant Methods Technical Program Plan

    Energy Technology Data Exchange (ETDEWEB)

    Richard R. Schultz; Abderrafi M. Ougouag; David W. Nigg; Hans D. Gougar; Richard W. Johnson; William K. Terry; Chang H. Oh; Donald W. McEligot; Gary W. Johnsen; Glenn E. McCreery; Woo Y. Yoon; James W. Sterbentz; J. Steve Herring; Temitope A. Taiwo; Thomas Y. C. Wei; William D. Pointer; Won S. Yang; Michael T. Farmer; Hussein S. Khalil; Madeline A. Feltus

    2010-12-01

    One of the great challenges of designing and licensing the Very High Temperature Reactor (VHTR) is to confirm that the intended VHTR analysis tools can be used confidently to make decisions and to assure all that the reactor systems are safe and meet the performance objectives of the Generation IV Program. The research and development (R&D) projects defined in the Next Generation Nuclear Plant (NGNP) Design Methods Development and Validation Program will ensure that the tools used to perform the required calculations and analyses can be trusted. The Methods R&D tasks are designed to ensure that the calculational envelope of the tools used to analyze the VHTR reactor systems encompasses, or is larger than, the operational and transient envelope of the VHTR itself. The Methods R&D focuses on the development of tools to assess the neutronic and thermal fluid behavior of the plant. The fuel behavior and fission product transport models are discussed in the Advanced Gas Reactor (AGR) program plan. Various stress analysis and mechanical design tools will also need to be developed and validated and will ultimately also be included in the Methods R&D Program Plan. The calculational envelope of the neutronics and thermal-fluids software tools intended to be used on the NGNP is defined by the scenarios and phenomena that these tools can calculate with confidence. The software tools can only be used confidently when the results they produce have been shown to be in reasonable agreement with first-principle results, thought-problems, and data that describe the “highly ranked” phenomena inherent in all operational conditions and important accident scenarios for the VHTR.

  10. Single Stage Contactor Testing Of The Next Generation Solvent Blend

    Energy Technology Data Exchange (ETDEWEB)

    Herman, D. T.; Peters, T. B.; Duignan, M. R.; Williams, M. R.; Poirier, M. R.; Brass, E. A.; Garrison, A. G.; Ketusky, E. T.

    2014-01-06

    The Modular Caustic Side Solvent Extraction (CSSX) Unit (MCU) facility at the Savannah River Site (SRS) is actively pursuing the transition from the current BOBCalixC6 based solvent to the Next Generation Solvent (NGS)-MCU solvent to increase the cesium decontamination factor. To support this integration of NGS into the MCU facility the Savannah River National Laboratory (SRNL) performed testing of a blend of the NGS (MaxCalix based solvent) with the current solvent (BOBCalixC6 based solvent) for the removal of cesium (Cs) from the liquid salt waste stream. This testing utilized a blend of BOBCalixC6 based solvent and the NGS with the new extractant, MaxCalix, as well as a new suppressor, tris(3,7dimethyloctyl) guanidine. Single stage tests were conducted using the full size V-05 and V-10 liquid-to-liquid centrifugal contactors installed at SRNL. These tests were designed to determine the mass transfer and hydraulic characteristics with the NGS solvent blended with the projected heel of the BOBCalixC6 based solvent that will exist in MCU at time of transition. The test program evaluated the amount of organic carryover and the droplet size of the organic carryover phases using several analytical methods. The results indicate that hydraulically, the NGS solvent performed hydraulically similar to the current solvent which was expected. For the organic carryover 93% of the solvent is predicted to be recovered from the stripping operation and 96% from the extraction operation. As for the mass transfer, the NGS solvent significantly improved the cesium DF by at least an order of magnitude when extrapolating the One-stage results to actual Seven-stage extraction operation with a stage efficiency of 95%.

  11. Next Generation Nuclear Plant Methods Technical Program Plan -- PLN-2498

    Energy Technology Data Exchange (ETDEWEB)

    Richard R. Schultz; Abderrafi M. Ougouag; David W. Nigg; Hans D. Gougar; Richard W. Johnson; William K. Terry; Chang H. Oh; Donald W. McEligot; Gary W. Johnsen; Glenn E. McCreery; Woo Y. Yoon; James W. Sterbentz; J. Steve Herring; Temitope A. Taiwo; Thomas Y. C. Wei; William D. Pointer; Won S. Yang; Michael T. Farmer; Hussein S. Khalil; Madeline A. Feltus

    2010-09-01

    One of the great challenges of designing and licensing the Very High Temperature Reactor (VHTR) is to confirm that the intended VHTR analysis tools can be used confidently to make decisions and to assure all that the reactor systems are safe and meet the performance objectives of the Generation IV Program. The research and development (R&D) projects defined in the Next Generation Nuclear Plant (NGNP) Design Methods Development and Validation Program will ensure that the tools used to perform the required calculations and analyses can be trusted. The Methods R&D tasks are designed to ensure that the calculational envelope of the tools used to analyze the VHTR reactor systems encompasses, or is larger than, the operational and transient envelope of the VHTR itself. The Methods R&D focuses on the development of tools to assess the neutronic and thermal fluid behavior of the plant. The fuel behavior and fission product transport models are discussed in the Advanced Gas Reactor (AGR) program plan. Various stress analysis and mechanical design tools will also need to be developed and validated and will ultimately also be included in the Methods R&D Program Plan. The calculational envelope of the neutronics and thermal-fluids software tools intended to be used on the NGNP is defined by the scenarios and phenomena that these tools can calculate with confidence. The software tools can only be used confidently when the results they produce have been shown to be in reasonable agreement with first-principle results, thought-problems, and data that describe the “highly ranked” phenomena inherent in all operational conditions and important accident scenarios for the VHTR.

  12. [Diagnosis of mitochondrial disorders in children with next generation sequencing].

    Science.gov (United States)

    Liu, Zhimei; Fang, Fang; Ding, Changhong; Zhang, Weihua; Li, Jiuwei; Yang, Xinying; Wang, Xiaohui; Wu, Yun; Wang, Hongmei; Liu, Liying; Han, Tongli; Wang, Xu; Chen, Chunhong; Lyu, Junlan; Wu, Husheng

    2015-10-01

    To explore the application value of next generation sequencing (NGS) in the diagnosis of mitochondrial disorders. According to mitochondrial disease criteria, genomic DNA was extracted using standard procedure from peripheral venous blood of patients with suspected mitochondrial disease collected from neurological department of Beijing Children's Hospital Affiliated to Capital Medical University between October 2012 and February 2014. Targeted NGS to capture and sequence the entire mtDNA and exons of the 1 000 nuclear genes related to mitochondrial structure and function. Clinical data were collected from patients diagnosed at a molecular level, then clinical features and the relationship between genotype and phenotype were analyzed. Mutation was detected in 21 of 70 patients with suspected mitochondrial disease, in whom 10 harbored mtDNA mutation, while 11 nuclear DNA (nDNA) mutation. In 21 patients, 1 was diagnosed congenital myasthenic syndrome with episodic apnea due to CHAT gene p.I187T homozygous mutation, and 20 were diagnosed mitochondrial disease, in which 10 were Leigh syndrome, 4 were mitochondrial encephalomyopathy with lactic acidosis and stroke like episodes syndrome, 3 were Leber hereditary optic neuropathy (LHON) and LHON plus, 2 were mitochondrial DNA depletion syndrome and 1 was unknown. All the mtDNA mutations were point mutations, which contained A3243G, G3460A, G11778A, T14484C, T14502C and T14487C. Ten mitochondrial disease patients harbored homozygous or compound heterozygous mutations in 5 genes previously shown to cause disease: SURF1, PDHA1, NDUFV1, SUCLA2 and SUCLG1, which had 14 mutations, and 7 of the 14 mutations have not been reported. NGS has a certain application value in the diagnosis of mitochondrial diseases, especially in Leigh syndrome atypical mitochondrial syndrome and rare mitochondrial disorders.

  13. High-Throughput Next-Generation Sequencing of Polioviruses

    Science.gov (United States)

    Montmayeur, Anna M.; Schmidt, Alexander; Zhao, Kun; Magaña, Laura; Iber, Jane; Castro, Christina J.; Chen, Qi; Henderson, Elizabeth; Ramos, Edward; Shaw, Jing; Tatusov, Roman L.; Dybdahl-Sissoko, Naomi; Endegue-Zanga, Marie Claire; Adeniji, Johnson A.; Oberste, M. Steven; Burns, Cara C.

    2016-01-01

    ABSTRACT The poliovirus (PV) is currently targeted for worldwide eradication and containment. Sanger-based sequencing of the viral protein 1 (VP1) capsid region is currently the standard method for PV surveillance. However, the whole-genome sequence is sometimes needed for higher resolution global surveillance. In this study, we optimized whole-genome sequencing protocols for poliovirus isolates and FTA cards using next-generation sequencing (NGS), aiming for high sequence coverage, efficiency, and throughput. We found that DNase treatment of poliovirus RNA followed by random reverse transcription (RT), amplification, and the use of the Nextera XT DNA library preparation kit produced significantly better results than other preparations. The average viral reads per total reads, a measurement of efficiency, was as high as 84.2% ± 15.6%. PV genomes covering >99 to 100% of the reference length were obtained and validated with Sanger sequencing. A total of 52 PV genomes were generated, multiplexing as many as 64 samples in a single Illumina MiSeq run. This high-throughput, sequence-independent NGS approach facilitated the detection of a diverse range of PVs, especially for those in vaccine-derived polioviruses (VDPV), circulating VDPV, or immunodeficiency-related VDPV. In contrast to results from previous studies on other viruses, our results showed that filtration and nuclease treatment did not discernibly increase the sequencing efficiency of PV isolates. However, DNase treatment after nucleic acid extraction to remove host DNA significantly improved the sequencing results. This NGS method has been successfully implemented to generate PV genomes for molecular epidemiology of the most recent PV isolates. Additionally, the ability to obtain full PV genomes from FTA cards will aid in facilitating global poliovirus surveillance. PMID:27927929

  14. Authentication of Herbal Supplements Using Next-Generation Sequencing.

    Science.gov (United States)

    Ivanova, Natalia V; Kuzmina, Maria L; Braukmann, Thomas W A; Borisenko, Alex V; Zakharov, Evgeny V

    2016-01-01

    DNA-based testing has been gaining acceptance as a tool for authentication of a wide range of food products; however, its applicability for testing of herbal supplements remains contentious. We utilized Sanger and Next-Generation Sequencing (NGS) for taxonomic authentication of fifteen herbal supplements representing three different producers from five medicinal plants: Echinacea purpurea, Valeriana officinalis, Ginkgo biloba, Hypericum perforatum and Trigonella foenum-graecum. Experimental design included three modifications of DNA extraction, two lysate dilutions, Internal Amplification Control, and multiple negative controls to exclude background contamination. Ginkgo supplements were also analyzed using HPLC-MS for the presence of active medicinal components. All supplements yielded DNA from multiple species, rendering Sanger sequencing results for rbcL and ITS2 regions either uninterpretable or non-reproducible between the experimental replicates. Overall, DNA from the manufacturer-listed medicinal plants was successfully detected in seven out of eight dry herb form supplements; however, low or poor DNA recovery due to degradation was observed in most plant extracts (none detected by Sanger; three out of seven-by NGS). NGS also revealed a diverse community of fungi, known to be associated with live plant material and/or the fermentation process used in the production of plant extracts. HPLC-MS testing demonstrated that Ginkgo supplements with degraded DNA contained ten key medicinal components. Quality control of herbal supplements should utilize a synergetic approach targeting both DNA and bioactive components, especially for standardized extracts with degraded DNA. The NGS workflow developed in this study enables reliable detection of plant and fungal DNA and can be utilized by manufacturers for quality assurance of raw plant materials, contamination control during the production process, and the final product. Interpretation of results should involve an

  15. Towards a Next-Generation Catalogue Cross-Match Service

    Science.gov (United States)

    Pineau, F.; Boch, T.; Derriere, S.; Arches Consortium

    2015-09-01

    We have been developing in the past several catalogue cross-match tools. On one hand the CDS XMatch service (Pineau et al. 2011), able to perform basic but very efficient cross-matches, scalable to the largest catalogues on a single regular server. On the other hand, as part of the European project ARCHES1, we have been developing a generic and flexible tool which performs potentially complex multi-catalogue cross-matches and which computes probabilities of association based on a novel statistical framework. Although the two approaches have been managed so far as different tracks, the need for next generation cross-match services dealing with both efficiency and complexity is becoming pressing with forthcoming projects which will produce huge high quality catalogues. We are addressing this challenge which is both theoretical and technical. In ARCHES we generalize to N catalogues the candidate selection criteria - based on the chi-square distribution - described in Pineau et al. (2011). We formulate and test a number of Bayesian hypothesis which necessarily increases dramatically with the number of catalogues. To assign a probability to each hypotheses, we rely on estimated priors which account for local densities of sources. We validated our developments by comparing the theoretical curves we derived with the results of Monte-Carlo simulations. The current prototype is able to take into account heterogeneous positional errors, object extension and proper motion. The technical complexity is managed by OO programming design patterns and SQL-like functionalities. Large tasks are split into smaller independent pieces for scalability. Performances are achieved resorting to multi-threading, sequential reads and several tree data-structures. In addition to kd-trees, we account for heterogeneous positional errors and object's extension using M-trees. Proper-motions are supported using a modified M-tree we developed, inspired from Time Parametrized R-trees (TPR

  16. Next generation of global land cover characterization, mapping, and monitoring

    Science.gov (United States)

    Giri, Chandra; Pengra, Bruce; Long, J.; Loveland, Thomas R.

    2013-01-01

    Land cover change is increasingly affecting the biophysics, biogeochemistry, and biogeography of the Earth's surface and the atmosphere, with far-reaching consequences to human well-being. However, our scientific understanding of the distribution and dynamics of land cover and land cover change (LCLCC) is limited. Previous global land cover assessments performed using coarse spatial resolution (300 m–1 km) satellite data did not provide enough thematic detail or change information for global change studies and for resource management. High resolution (∼30 m) land cover characterization and monitoring is needed that permits detection of land change at the scale of most human activity and offers the increased flexibility of environmental model parameterization needed for global change studies. However, there are a number of challenges to overcome before producing such data sets including unavailability of consistent global coverage of satellite data, sheer volume of data, unavailability of timely and accurate training and validation data, difficulties in preparing image mosaics, and high performance computing requirements. Integration of remote sensing and information technology is needed for process automation and high-performance computing needs. Recent developments in these areas have created an opportunity for operational high resolution land cover mapping, and monitoring of the world. Here, we report and discuss these advancements and opportunities in producing the next generations of global land cover characterization, mapping, and monitoring at 30-m spatial resolution primarily in the context of United States, Group on Earth Observations Global 30 m land cover initiative (UGLC).

  17. Wave front sensing for next generation earth observation telescope

    Science.gov (United States)

    Delvit, J.-M.; Thiebaut, C.; Latry, C.; Blanchet, G.

    2017-09-01

    High resolution observations systems are highly dependent on optics quality and are usually designed to be nearly diffraction limited. Such a performance allows to set a Nyquist frequency closer to the cut off frequency, or equivalently to minimize the pupil diameter for a given ground sampling distance target. Up to now, defocus is the only aberration that is allowed to evolve slowly and that may be inflight corrected, using an open loop correction based upon ground estimation and refocusing command upload. For instance, Pleiades satellites defocus is assessed from star acquisitions and refocusing is done with a thermal actuation of the M2 mirror. Next generation systems under study at CNES should include active optics in order to allow evolving aberrations not only limited to defocus, due for instance to in orbit thermal variable conditions. Active optics relies on aberration estimations through an onboard Wave Front Sensor (WFS). One option is using a Shack Hartmann. The Shack-Hartmann wave-front sensor could be used on extended scenes (unknown landscapes). A wave-front computation algorithm should then be implemented on-board the satellite to provide the control loop wave-front error measure. In the worst case scenario, this measure should be computed before each image acquisition. A robust and fast shift estimation algorithm between Shack-Hartmann images is then needed to fulfill this last requirement. A fast gradient-based algorithm using optical flows with a Lucas-Kanade method has been studied and implemented on an electronic device developed by CNES. Measurement accuracy depends on the Wave Front Error (WFE), the landscape frequency content, the number of searched aberrations, the a priori knowledge of high order aberrations and the characteristics of the sensor. CNES has realized a full scale sensitivity analysis on the whole parameter set with our internally developed algorithm.

  18. Next Generation Integrated Environment for Collaborative Work Across Internets

    Energy Technology Data Exchange (ETDEWEB)

    Harvey B. Newman

    2009-02-24

    We are now well-advanced in our development, prototyping and deployment of a high performance next generation Integrated Environment for Collaborative Work. The system, aimed at using the capability of ESnet and Internet2 for rapid data exchange, is based on the Virtual Room Videoconferencing System (VRVS) developed by Caltech. The VRVS system has been chosen by the Internet2 Digital Video (I2-DV) Initiative as a preferred foundation for the development of advanced video, audio and multimedia collaborative applications by the Internet2 community. Today, the system supports high-end, broadcast-quality interactivity, while enabling a wide variety of clients (Mbone, H.323) to participate in the same conference by running different standard protocols in different contexts with different bandwidth connection limitations, has a fully Web-integrated user interface, developers and administrative APIs, a widely scalable video network topology based on both multicast domains and unicast tunnels, and demonstrated multiplatform support. This has led to its rapidly expanding production use for national and international scientific collaborations in more than 60 countries. We are also in the process of creating a 'testbed video network' and developing the necessary middleware to support a set of new and essential requirements for rapid data exchange, and a high level of interactivity in large-scale scientific collaborations. These include a set of tunable, scalable differentiated network services adapted to each of the data streams associated with a large number of collaborative sessions, policy-based and network state-based resource scheduling, authentication, and optional encryption to maintain confidentiality of inter-personal communications. High performance testbed video networks will be established in ESnet and Internet2 to test and tune the implementation, using a few target application-sets.

  19. Anomaly Detection for Next-Generation Space Launch Ground Operations

    Science.gov (United States)

    Spirkovska, Lilly; Iverson, David L.; Hall, David R.; Taylor, William M.; Patterson-Hine, Ann; Brown, Barbara; Ferrell, Bob A.; Waterman, Robert D.

    2010-01-01

    NASA is developing new capabilities that will enable future human exploration missions while reducing mission risk and cost. The Fault Detection, Isolation, and Recovery (FDIR) project aims to demonstrate the utility of integrated vehicle health management (IVHM) tools in the domain of ground support equipment (GSE) to be used for the next generation launch vehicles. In addition to demonstrating the utility of IVHM tools for GSE, FDIR aims to mature promising tools for use on future missions and document the level of effort - and hence cost - required to implement an application with each selected tool. One of the FDIR capabilities is anomaly detection, i.e., detecting off-nominal behavior. The tool we selected for this task uses a data-driven approach. Unlike rule-based and model-based systems that require manual extraction of system knowledge, data-driven systems take a radically different approach to reasoning. At the basic level, they start with data that represent nominal functioning of the system and automatically learn expected system behavior. The behavior is encoded in a knowledge base that represents "in-family" system operations. During real-time system monitoring or during post-flight analysis, incoming data is compared to that nominal system operating behavior knowledge base; a distance representing deviation from nominal is computed, providing a measure of how far "out of family" current behavior is. We describe the selected tool for FDIR anomaly detection - Inductive Monitoring System (IMS), how it fits into the FDIR architecture, the operations concept for the GSE anomaly monitoring, and some preliminary results of applying IMS to a Space Shuttle GSE anomaly.

  20. Next Generation CANDU: Conceptual Design for a Short Construction Schedule

    International Nuclear Information System (INIS)

    Hopwood, Jerry M.; Love, Ian J.W.; Elgohary, Medhat; Fairclough, Neville

    2002-01-01

    Atomic Energy of Canada Ltd. (AECL) has very successful experience in implementing new construction methods at the Qinshan (Phase III) twin unit CANDU 6 plant in China. This paper examines the construction method that must be implemented during the conceptual design phase of a project if short construction schedules are to be met. A project schedule of 48 months has been developed for the nth unit of NG (Next Generation) CANDU with a 42 month construction period from 1. Concrete to In-Service. An overall construction strategy has been developed involving paralleling project activities that are normally conducted in series. Many parts of the plant will be fabricated as modules and be installed using heavy lift cranes. The Reactor Building (RB), being on the critical path, has been the focus of considerable assessment, looking at alternative ways of applying the construction strategy to this building. A construction method has been chosen which will result in excess of 80% of internal work being completed as modules or as very streamlined traditional construction. This method is being further evaluated as the detailed layout proceeds. Other areas of the plant have been integrated into the schedule and new construction methods are being applied to these so that further modularization and even greater paralleling of activities will be achieved. It is concluded that the optimized construction method is a requirement, which must be implemented through all phases of design to make a 42 month construction schedule a reality. If the construction methods are appropriately chosen, the schedule reductions achieved will make nuclear more competitive. (authors)

  1. Microbiome selection could spur next-generation plant breeding strategies

    Directory of Open Access Journals (Sweden)

    Murali Gopal

    2016-12-01

    Full Text Available Plants, though sessile, have developed a unique strategy to counter biotic and abiotic stresses by symbiotically co-evolving with microorganisms and tapping into their genome for this purpose. Soil is the bank of microbial diversity from which a plant selectively sources its microbiome to suit its needs. Besides soil, seeds, which carry the genetic blueprint of plants during trans-generational propagation, are home to diverse microbiota that acts as the principal source of microbial inoculum in crop cultivation. Overall, a plant is ensconced both on the outside and inside with a diverse assemblage of microbiota. Together, the plant genome and the genes of the microbiota that the plant harbours in different plant tissues i.e the ‘plant microbiome’, form the holobiome which is now considered as unit of selection: ‘the holobiont’. The ‘plant microbiome’ not only helps plants to remain fit but also offers critical genetic variability, hitherto, not employed in the breeding strategy by plant breeders, who traditionally have exploited the genetic variability of the host for developing high yielding or disease tolerant or drought resistant varieties. This fresh knowledge of the microbiome, particularly of the rhizosphere, offering genetic variability to plants, opens up new horizons for breeding that could usher in cultivation of next-generation crops depending less on inorganic inputs, resistant to insect pest and diseases and resilient to climatic perturbations. We surmise, from ever increasing evidences, that plants and their microbial symbionts need to be co-propagated as life-long partners in future strategies for plant breeding.

  2. Liquid as template for next generation micro devices

    International Nuclear Information System (INIS)

    Charmet, Jerome; Haquette, Henri; Laux, Edith; Keppner, Herbert; Gorodyska, Ganna; Textor, Marcus; Durante, Guido Spinola; Portuondo-Campa, Erwin; Knapp, Helmut; Bitterli, Roland; Noell, Wilfried

    2009-01-01

    their potential to deliver next generation micro devices.

  3. Coval: improving alignment quality and variant calling accuracy for next-generation sequencing data.

    Directory of Open Access Journals (Sweden)

    Shunichi Kosugi

    Full Text Available Accurate identification of DNA polymorphisms using next-generation sequencing technology is challenging because of a high rate of sequencing error and incorrect mapping of reads to reference genomes. Currently available short read aligners and DNA variant callers suffer from these problems. We developed the Coval software to improve the quality of short read alignments. Coval is designed to minimize the incidence of spurious alignment of short reads, by filtering mismatched reads that remained in alignments after local realignment and error correction of mismatched reads. The error correction is executed based on the base quality and allele frequency at the non-reference positions for an individual or pooled sample. We demonstrated the utility of Coval by applying it to simulated genomes and experimentally obtained short-read data of rice, nematode, and mouse. Moreover, we found an unexpectedly large number of incorrectly mapped reads in 'targeted' alignments, where the whole genome sequencing reads had been aligned to a local genomic segment, and showed that Coval effectively eliminated such spurious alignments. We conclude that Coval significantly improves the quality of short-read sequence alignments, thereby increasing the calling accuracy of currently available tools for SNP and indel identification. Coval is available at http://sourceforge.net/projects/coval105/.

  4. Next Generation "Omics" Approaches in the "Fight" against Blood Doping.

    Science.gov (United States)

    Wang, Guan; Karanikolou, Antonia; Verdouka, Ioanna; Friedmann, Theodore; Pitsiladis, Yannis

    2017-01-01

    Despite being prohibited by the World Anti-Doping Agency (WADA), blood manipulations such as the use of recombinant human erythropoietin and blood transfusions are a well-known method used by athletes to enhance performance. Direct detection of illicit blood manipulation has been partially successful due to the short detection window of the substances/methods, sample collection timing, and the use of sophisticated masking strategies. In response, WADA introduced the athlete biological passport (ABP) in 2009, which is an individualised longitudinal monitoring approach that tests primarily haematologic biomarkers of doping in order to identify atypical variability in response(s) in athletes, highlighting a potential doping violation. Although the implementation of the ABP has been an encouraging step forward in the quest for clean/drug-free sport, this detection method has some limitations. To reduce the risk of being detected by the ABP method, athletes are now resorting to microdoses of prohibited blood boosting substances to prevent abnormal fluctuations in haematologic biomarkers, thereby reducing the sensitivity of the ABP detection method. Recent studies from numerous laboratories, including our own, have confirmed the potential of transcriptomic microarrays, which can reveal distinct changes in gene expression after blood manipulations, to enhance the ABP. There is, therefore, an urgent need to intensify research efforts that involve transcriptomics and other state-of-the-art molecular methods, collectively known as "omics", e.g., proteomics (proteins) and metabolomics (metabolites), in order to identify new and even more robust molecular signatures of blood manipulation that can be used in combination with the ABP and, intriguingly, even as a stand-alone test. © 2017 S. Karger AG, Basel.

  5. Comparative Transcriptome Analysis of Salivary Glands of Two Populations of Rice Brown Planthopper, Nilaparvata lugens, That Differ in Virulence

    OpenAIRE

    Ji, Rui; Yu, Haixin; Fu, Qiang; Chen, Hongdan; Ye, Wenfeng; Li, Shaohui; Lou, Yonggen

    2013-01-01

    BACKGROUND: The brown planthopper (BPH), Nilaparvata lugens (Stål), a destructive rice pest in Asia, can quickly overcome rice resistance by evolving new virulent populations. Herbivore saliva plays an important role in plant-herbivore interactions, including in plant defense and herbivore virulence. However, thus far little is known about BPH saliva at the molecular level, especially its role in virulence and BPH-rice interaction. METHODOLOGY/PRINCIPAL FINDINGS: Using cDNA amplification in c...

  6. Next Generation Nuclear Plant Project Preliminary Project Management Plan

    International Nuclear Information System (INIS)

    Dennis J. Harrell

    2006-01-01

    This draft preliminary project management plan presents the conceptual framework for the Next Generation Nuclear Plant (NGNP) Project, consistent with the authorization in the Energy Policy Act of 2005. In developing this plan, the Idaho National Laboratory has considered three fundamental project planning options that are summarized in the following section. Each of these planning options is literally compliant with the Energy Policy Act of 2005, but each emphasizes different approaches to technology development risks, design, licensing and construction risks, and to the extent of commercialization support provided to the industry. The primary focus of this draft preliminary project management plan is to identify those activities important to Critical Decision-1, at which point a decision on proceeding with the NGNP Project can be made. The conceptual project framework described herein is necessary to establish the scope and priorities for the technology development activities. The framework includes: A reference NGNP prototype concept based on what is judged to be the lowest risk technology development that would achieve the needed commercial functional requirements to provide an economically competitive nuclear heat source and hydrogen production capability. A high-level schedule logic for design, construction, licensing, and acceptance testing. This schedule logic also includes an operational shakedown period that provides proof-of-principle to establish the basis for commercialization decisions by end-users. An assessment of current technology development plans to support Critical Decision-1 and overall project progress. The most important technical and programmatic uncertainties (risks) are evaluated, and potential mitigation strategies are identified so that the technology development plans may be modified as required to support ongoing project development. A rough-order-of-magnitude cost evaluation that provides an initial basis for budget planning. This

  7. Metallic Nanocomposites as Next-Generation Thermal Interface Materials: Preprint

    Energy Technology Data Exchange (ETDEWEB)

    Feng, Xuhui [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Narumanchi, Sreekant V [National Renewable Energy Laboratory (NREL), Golden, CO (United States); King, Charles C [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Nagabandi, Nirup [Texas A& M University; Oh, Jun K. [Texas A& M University; Akbulut, Mustafa [Texas A& M University; Yegin, Cengiz [Texas A& M University

    2017-09-14

    nanocomposite is 11 ppm/K, which lies between the CTEs of aluminum (22 ppm/K) and silicon (3 ppm/K), which are common heat sink and heat source materials, respectively. The nanocomposite can also be deposited directly on to heat sink which will simplify the packaging processes by removing one possible element to assemble. These unique properties and ease of assembly makes the nanocomposite a promising next-generation TIM.

  8. Recruiting Fresh Faces: Engaging the Next Generation of Geoscientists

    Science.gov (United States)

    Martinez, C. M.; Keane, C. M.; Gonzales, L. M.

    2008-12-01

    careers, such as access to the Online Glossary of Geology, and will also allow students to join several professional geoscience societies free of charge so that they are included in our global community from the beginning of their academic careers. AGI is creating a global network for geoscience students using social networking and video-sharing websites. Student engagement materials will also address parents' concerns, since they have considerable influence in students' decisions. According to a study by the National Research Center for College and University Admissions, 70 percent of high school juniors say their parents influence their college choices. The AGI Student Engagement Initiative is designed to compliment the recruiting efforts of individual geoscience departments and to assist them in attracting the next generation of geoscientists to our community.

  9. Looking Forward - A Next Generation of Thermal Infrared Planetary Instruments

    Science.gov (United States)

    Christensen, P. R.; Hamilton, V. E.; Edwards, C. S.; Spencer, J. R.

    2017-12-01

    Thermal infrared measurements have provided important information about the physical properties of planetary surfaces beginning with the initial Mariner spacecraft in the early 1960's. These infrared measurements will continue into the future with a series of instruments that are now on their way or in development that will explore a suite of asteroids, Europa, and Mars. These instruments are being developed at Arizona State University, and are next-generation versions of the TES, Mini-TES, and THEMIS infrared spectrometers and imagers. The OTES instrument on OSIRIS-REx, which was launched in Sept. 2016, will map the surface of the asteroid Bennu down to a resolution of 40 m/pixel at seven times of day. This multiple time of day coverage will be used to produce global thermal inertia maps that will be used to determine the particle size distribution, which will in turn help select a safe and appropriate sample site. The EMIRS instrument, which is being built in partnership with the UAE's MBRSC for the Emirates Mars Mission, will measure martian surface temperatures at 200-300 km/pixel scales at over the full diurnal cycle - the first time the full diurnal temperature cycle has been observed since the Viking mission. The E-THEMIS instrument on the Europa Clipper mission will provide global mapping at 5-10 km/pixel scale at multiple times of day, and local observations down to resolutions of 50 m/pixel. These measurements will have a precision of 0.2 K for a 90 K scene, and will be used to map the thermal inertia and block abundances across Europa and to identify areas of localized endogenic heat. These observations will be used to investigate the physical processes of surface formation and evolution and to help select the landing site of a future Europa lander. Finally, the LTES instrument on the Lucy mission will measure temperatures on the day and night sides of the target Trojan asteroids, again providing insights into their surface properties and evolution

  10. Development of the Next Generation Type Water Recovery System

    Science.gov (United States)

    Oguchi, Mitsuo; Tachihara, Satoru; Maeda, Yoshiaki; Ueoka, Terumi; Soejima, Fujito; Teranishi, Hiromitsu

    According to NASA, an astronaut living on the International Space Station (ISS) requires approximately 7 kg of water per day. This includes 2 kg of drinking water as well as sanitary fresh water for hand washing, gargling, etc. This water is carried to the space station from the earth, so when more people are staying on the space station, or staying for a longer period of time, the cost of transporting water increases. Accordingly, water is a valuable commodity, and restrictions are applied to such activities as brushing teeth, washing hair, and washing clothes. The life of an astronaut in space is not necessarily a healthy one. JAXA has experience in the research of water recovery systems. Today, utilizing knowledge learned through experiences living on the space station and space shuttles, and taking advantage of the development of new materials for device construction, it is possible to construct a new water recovery system. Therefore, JAXA and New Medican Tech Corporation (NMT) have created a system for collaborative development. Based on the technologies of both companies, we are proceeding to develop the next generation of water recovery devices in order to contribute to safe, comfortable, and healthy daily life for astronauts in space. The goal of this development is to achieve a water purification system based on reverse osmosis (RO) membranes that can perform the following functions. • Preprocessing that removes ammonia and breaks down organic matter contained in urine. • Post-processing that adds minerals and sterilizes the water. • Online TOC measurement for monitoring water quality. • Functions for measuring harmful substances. The RO membrane is an ultra-low-pressure type membrane with a 0.0001 micron (0.1 nanometer) pore size and an operating pressure of 0.4 to 0.6 MPa. During processing with the RO membrane, nearly all of the minerals contained in the cleaned water are removed, resulting in water that is near the quality of deionized water

  11. Oak Ridge National Laboratory Next Generation Safeguards Initiative

    Energy Technology Data Exchange (ETDEWEB)

    Kirk, Bernadette Lugue [ORNL; Eipeldauer, Mary D [ORNL; Whitaker, J Michael [ORNL

    2011-12-01

    In 2007, the Department of Energy's National Nuclear Security Administration (DOE/NNSA) Office of Nonproliferation and International Security (NA-24) completed a comprehensive review of the current and potential future challenges facing the international safeguards system. The review examined trends and events impacting the mission of international safeguards and the implications of expanding and evolving mission requirements on the legal authorities and institutions that serve as the foundation of the international safeguards system, as well as the technological, financial, and human resources required for effective safeguards implementation. The review's findings and recommendations were summarized in the report, 'International Safeguards: Challenges and Opportunities for the 21st Century (October 2007)'. One of the report's key recommendations was for DOE/NNSA to launch a major new program to revitalize the international safeguards technology and human resource base. In 2007, at the International Atomic Energy Agency's General Conference, then Secretary of Energy Samuel W. Bodman announced the newly created Next Generation Safeguards Initiative (NGSI). NGSI consists of five program elements: (1) Policy development and outreach; (2) Concepts and approaches; (3) Technology and analytical methodologies; (4) Human resource development; and (5) Infrastructure development. The ensuing report addresses the 'Human Resource Development (HRD)' component of NGSI. The goal of the HRD as defined in the NNSA Program Plan (November 2008) is 'to revitalize and expand the international safeguards human capital base by attracting and training a new generation of talent.' One of the major objectives listed in the HRD goal includes education and training, outreach to universities, professional societies, postdoctoral appointments, and summer internships at national laboratories. ORNL is a participant in the NGSI program, together

  12. Embedded model control GNC for the Next Generation Gravity Mission

    Science.gov (United States)

    Colangelo, Luigi; Massotti, Luca; Canuto, Enrico; Novara, Carlo

    2017-11-01

    A Next Generation Gravity Mission (NGGM) concept for measuring the Earth's variable gravity field has been recently proposed by ESA. The mission objective consists in measuring the temporal variations of the Earth gravity field over a long-time span, with very high spatial and temporal resolutions. This paper focuses on the guidance, navigation and control (GNC) design for the science phase of the NGGM mission. NGGM will consist of a two-satellite long-distance formation like GRACE, where each satellite will be controlled to be drag-free like GOCE. Satellite-to-satellite distance variations, encoding gravity anomalies, will be measured by laser interferometry. The formation satellites, distant up to 200 km, will fly in a quasi-polar orbit at an Earth altitude between 300 and 450 km. Orbit and formation control counteract bias and drift of the residual drag-free accelerations, in order to reach orbit/formation long-term stability. Drag-free control allows the formation to fly counteracting the atmospheric drag, ideally subject only to gravity. Orbit and formation control, designed through the innovative Integrated Formation Control (IFC), have been integrated into a unique control system, aiming at stabilizing the formation triangle consisting of satellites and Earth Center of Masses. In addition, both spacecraft must align their control axis to the satellite-to-satellite line (SSL) with micro-radian accuracy. This is made possible by specific optical sensors and the inter-satellite laser interferometer, capable of materializing the SSL. Such sensors allow each satellite to pursue an autonomous alignment after a suitable acquisition procedure. Pointing control is severely constrained by the angular drag-free control, which must ideally zero the angular acceleration vector, in the science frequency band. The control unit has been designed according to the Embedded Model Control methodology and is organized in a hierarchical way, where the drag-free control plays the

  13. EDF view on next generation reactor safety and operability issues

    International Nuclear Information System (INIS)

    Serviere, G.

    2002-01-01

    is involved at various degrees in the evaluation of next generation: - Light-water reactors; - Gas-cooled reactors; - Liquid-metal reactors. Available information is not the same for all concepts, but nevertheless adequate for identifying areas where confirmation of assumptions would be needed. After discussing some crosscut issues, this paper outlines which areas would have to be clarified for each type of reactor before they could be considered proven by the company. Issues for which R and D programs could be needed are also be identified. (author)

  14. The Southwest Configuration for the Next Generation Very Large Array

    Science.gov (United States)

    Irwin Kellermann, Kenneth; Carilli, Chris; Condon, James; Cotton, William; Murphy, Eric Joseph; Nyland, Kristina

    2018-01-01

    We discuss the planned array configuration for the Next Generation Very Large Array (ngVLA). The configuration, termed the "Southwest Array," consists of 214 antennas each 18 m in diameter, distributed over the Southwest United States and Northern Mexico. The antenna locations have been set applying rough real-world constraints, such as road, fiber, and power access. The antenna locations will be fixed, with roughly 50% of the antennas in a "core" of 2 km diameter, located at the site of the JVLA. Another 30% of the antennas will be distributed over the Plains of San Augustin to a diameter of 30 km, possibly along, or near, the current JVLA arms. The remaining 20% of the antennas will be distributed in a rough two-arm spiral pattern to the South and East, out to a maximum distance of 500 km, into Texas, Arizona, and Chihuahua. Years of experience with the VLA up to 50 GHz, plus intensive antenna testing up to 250 GHz for the ALMA prototype antennas, verify the VLA site as having very good observing conditions (opacity, phase stability), up to 115 GHz (ngVLA Memo No. 1). Using a suite of tools implemented in CASA, we have made extensive imaging simulations with this configuration. We find that good imaging performance can be obtained through appropriate weighting of the visibilities, for resolutions ranging from that of the core of the array (1" at 30 GHz), out to the longest baselines (10 mas at 30 GHz), with a loss of roughly a factor of two in sensitivity relative to natural weighting (ngVLA Memo No. 16). The off-set core, located on the northern edge of the long baseline configuration, provides excellent sensitivity even on the longest baselines. We are considering, in addition, a compact configuration of 16 close-packed 6 m antennas to obtain uv-coverage down to baselines ~ 10 m for imaging large scale structure, as well as a configuration including 9 stations distributed to continental scales.

  15. Raytheon's next generation compact inline cryocooler architecture

    Energy Technology Data Exchange (ETDEWEB)

    Schaefer, B. R.; Bellis, L.; Ellis, M. J.; Conrad, T. [Raytheon Space and Airborne Systems, 2000 E. El Segundo Blvd., El Segundo, CA 90245 (United States)

    2014-01-29

    Since the 1970s, Raytheon has developed, built, tested and integrated high performance cryocoolers. Our versatile designs for single and multi-stage cryocoolers provide reliable operation for temperatures from 10 to 200 Kelvin with power levels ranging from 50 W to nearly 600 W. These advanced cryocoolers incorporate clearance seals, flexure suspensions, hermetic housings and dynamic balancing to provide long service life and reliable operation in all relevant environments. Today, sensors face a multitude of cryocooler integration challenges such as exported disturbance, efficiency, scalability, maturity, and cost. As a result, cryocooler selection is application dependent, oftentimes requiring extensive trade studies to determine the most suitable architecture. To optimally meet the needs of next generation passive IR sensors, the Compact Inline Raytheon Stirling 1-Stage (CI-RS1), Compact Inline Raytheon Single Stage Pulse Tube (CI-RP1) and Compact Inline Raytheon Hybrid Stirling/Pulse Tube 2-Stage (CI-RSP2) cryocoolers are being developed to satisfy this suite of requirements. This lightweight, compact, efficient, low vibration cryocooler combines proven 1-stage (RS1 or RP1) and 2-stage (RSP2) cold-head architectures with an inventive set of warm-end mechanisms into a single cooler module, allowing the moving mechanisms for the compressor and the Stirling displacer to be consolidated onto a common axis and in a common working volume. The CI cryocooler is a significant departure from the current Stirling cryocoolers in which the compressor mechanisms are remote from the Stirling displacer mechanism. Placing all of the mechanisms in a single volume and on a single axis provides benefits in terms of package size (30% reduction), mass (30% reduction), thermodynamic efficiency (>20% improvement) and exported vibration performance (≤25 mN peak in all three orthogonal axes at frequencies from 1 to 500 Hz). The main benefit of axial symmetry is that proven balancing

  16. Next generation framework for aquatic modeling of the Earth System

    Science.gov (United States)

    Fekete, B. M.; Wollheim, W. M.; Wisser, D.; Vörösmarty, C. J.

    2009-03-01

    Earth System model development is becoming an increasingly complex task. As scientists attempt to represent the physical and bio-geochemical processes and various feedback mechanisms in unprecedented detail, the models themselves are becoming increasingly complex. At the same time, the complexity of the surrounding IT infrastructure is growing as well. Earth System models must manage a vast amount of data in heterogeneous computing environments. Numerous development efforts are on the way to ease that burden and offer model development platforms that reduce IT challenges and allow scientists to focus on their science. While these new modeling frameworks (e.g. FMS, ESMF, CCA, OpenMI) do provide solutions to many IT challenges (performing input/output, managing space and time, establishing model coupling, etc.), they are still considerably complex and often have steep learning curves. The Next generation Framework for Aquatic Modeling of the Earth System (NextFrAMES, a revised version of FrAMES) have numerous similarities to those developed by other teams, but represents a novel model development paradigm. NextFrAMES is built around a modeling XML that lets modelers to express the overall model structure and provides an API for dynamically linked plugins to represent the processes. The model XML is executed by the NextFrAMES run-time engine that parses the model definition, loads the module plugins, performs the model I/O and executes the model calculations. NextFrAMES has a minimalistic view representing spatial domains and treats every domain (regardless of its layout such as grid, network tree, individual points, polygons, etc.) as vector of objects. NextFrAMES performs computations on multiple domains and interactions between different spatial domains are carried out through couplers. NextFrAMES allows processes to operate at different frequencies by providing rudimentary aggregation and disaggregation facilities. NextFrAMES was designed primarily for

  17. SMITH: a LIMS for handling next-generation sequencing workflows.

    Science.gov (United States)

    Venco, Francesco; Vaskin, Yuriy; Ceol, Arnaud; Muller, Heiko

    2014-01-01

    Life-science laboratories make increasing use of Next Generation Sequencing (NGS) for studying bio-macromolecules and their interactions. Array-based methods for measuring gene expression or protein-DNA interactions are being replaced by RNA-Seq and ChIP-Seq. Sequencing is generally performed by specialized facilities that have to keep track of sequencing requests, trace samples, ensure quality and make data available according to predefined privileges. An integrated tool helps to troubleshoot problems, to maintain a high quality standard, to reduce time and costs. Commercial and non-commercial tools called LIMS (Laboratory Information Management Systems) are available for this purpose. However, they often come at prohibitive cost and/or lack the flexibility and scalability needed to adjust seamlessly to the frequently changing protocols employed. In order to manage the flow of sequencing data produced at the Genomic Unit of the Italian Institute of Technology (IIT), we developed SMITH (Sequencing Machine Information Tracking and Handling). SMITH is a web application with a MySQL server at the backend. Wet-lab scientists of the Centre for Genomic Science and database experts from the Politecnico of Milan in the context of a Genomic Data Model Project developed SMITH. The data base schema stores all the information of an NGS experiment, including the descriptions of all protocols and algorithms used in the process. Notably, an attribute-value table allows associating an unconstrained textual description to each sample and all the data produced afterwards. This method permits the creation of metadata that can be used to search the database for specific files as well as for statistical analyses. SMITH runs automatically and limits direct human interaction mainly to administrative tasks. SMITH data-delivery procedures were standardized making it easier for biologists and analysts to navigate the data. Automation also helps saving time. The workflows are available

  18. Metallic Nanocomposites as Next-Generation Thermal Interface Materials

    Energy Technology Data Exchange (ETDEWEB)

    Feng, Xuhui [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Narumanchi, Sreekant V [National Renewable Energy Laboratory (NREL), Golden, CO (United States); King, Charles C [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Nagabandi, Nirup [Texas A& M University; Oh, Jun Kyun [Texas A& M University; Akbulut, Mustafa [Texas A& M University; Yegin, Cengiz [Texas A& M University

    2017-07-27

    nanocomposite is 11 ppm/K, which lies between the CTEs of aluminum (22 ppm/K) and silicon (3 ppm/K), which are common heat sink and heat source materials, respectively. The nanocomposite can also be deposited directly on to heat sink which will simplify the packaging processes by removing one possible element to assemble. These unique properties and ease of assembly makes the nanocomposite a promising next-generation TIM.

  19. Next Generation Nuclear Plant Research and Development Program Plan

    Energy Technology Data Exchange (ETDEWEB)

    P. E. MacDonald

    2005-01-01

    The U.S Department of Energy (DOE) is conducting research and development (R&D) on the Very High Temperature Reactor (VHTR) design concept for the Next Generation Nuclear Plant (NGNP) Project. The reactor design will be a graphite moderated, thermal neutron spectrum reactor that will produce electricity and hydrogen in a highly efficient manner. The NGNP reactor core could be either a prismatic graphite block type core or a pebble bed core. Use of a liquid salt coolant is also being evaluated. The NGNP will use very high-burnup, low-enriched uranium, TRISO-coated fuel, and have a projected plant design service life of 60 years. The VHTR concept is considered to be the nearest-term reactor design that has the capability to efficiently produce hydrogen. The plant size, reactor thermal power, and core configuration will ensure passive decay heat removal without fuel damage or radioactive material releases during accidents. The objectives of the NGNP Project are to: Demonstrate a full-scale prototype VHTR that is commercially licensed by the U.S. Nuclear Regulatory Commission Demonstrate safe and economical nuclearassisted production of hydrogen and electricity. The DOE laboratories, led by the INL, will perform R&D that will be critical to the success of the NGNP, primarily in the areas of: High temperature gas reactor fuels behavior High temperature materials qualification Design methods development and validation Hydrogen production technologies Energy conversion. The current R&D work is addressing fundamental issues that are relevant to a variety of possible NGNP designs. This document describes the NGNP R&D planned and currently underway in the first three topic areas listed above. The NGNP Advanced Gas Reactor (AGR) Fuel Development and Qualification Program is presented in Section 2, the NGNP Materials R&D Program Plan is presented in Section 3, and the NGNP Design Methods Development and Validation R&D Program is presented in Section 4. The DOE-funded hydrogen

  20. Next Generation Nuclear Plant Research and Development Program Plan

    Energy Technology Data Exchange (ETDEWEB)

    None

    2005-01-01

    The U.S Department of Energy (DOE) is conducting research and development (R&D) on the Very High Temperature Reactor (VHTR) design concept for the Next Generation Nuclear Plant (NGNP) Project. The reactor design will be a graphite moderated, thermal neutron spectrum reactor that will produce electricity and hydrogen in a highly efficient manner. The NGNP reactor core could be either a prismatic graphite block type core or a pebble bed core. Use of a liquid salt coolant is also being evaluated. The NGNP will use very high-burnup, low-enriched uranium, TRISO-coated fuel, and have a projected plant design service life of 60 years. The VHTR concept is considered to be the nearest-term reactor design that has the capability to efficiently produce hydrogen. The plant size, reactor thermal power, and core configuration will ensure passive decay heat removal without fuel damage or radioactive material releases during accidents. The objectives of the NGNP Project are to: (1) Demonstrate a full-scale prototype VHTR that is commercially licensed by the U.S. Nuclear Regulatory Commission (2) Demonstrate safe and economical nuclear-assisted production of hydrogen and electricity. The DOE laboratories, led by the INL, will perform R&D that will be critical to the success of the NGNP, primarily in the areas of: (1) High temperature gas reactor fuels behavior; (2) High temperature materials qualification; (3) Design methods development and validation; (4) Hydrogen production technologies; and (5) Energy conversion. The current R&D work is addressing fundamental issues that are relevant to a variety of possible NGNP designs. This document describes the NGNP R&D planned and currently underway in the first three topic areas listed above. The NGNP Advanced Gas Reactor (AGR) Fuel Development and Qualification Program is presented in Section 2, the NGNP Materials R&D Program Plan is presented in Section 3, and the NGNP Design Methods Development and Validation R&D Program is presented