| 1. |
- Browne, Michael, et al.
(författare)
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Parallelization of MATLAB for Euro50 integrated modeling
- 2004
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Ingår i: Modeling and Systems Engineering for Astronomy (Proceedings of the SPIE). - : SPIE. - 081945429X ; 5497, s. 604-610
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Konferensbidrag (refereegranskat)abstract
- MATLAB and its companion product Simulink are commonly used tools insystems modelling and other scientific disciplines. A cross-disciplinaryintegrated MATLAB model is used to study the overall performance of theproposed 50m optical and infrared telescope, Euro50. However thecomputational requirements of this kind of end-to-end simulation of thetelescope's behaviour, exceeds the capability of an individualcontemporary Personal Computer. By parallelizing the model, primarily ona functional basis, it can be implemented across a Beowulf cluster ofgeneric PCs. This requires MATLAB to distribute in some way data andcalculations to the cluster nodes and combine completed results. Therehave been a number of attempts to produce toolkits to allow MATLAB to beused in a parallel fashion. They have used a variety of techniques. Herewe present findings from using some of these toolkits and proposedadvances.
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| 2. |
- Dopson, Mark, et al.
(författare)
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Characterization of Ferroplasma isolates and Ferroplasma acidarmanus sp. nov., extreme acidophiles from acid mine drainage and industrial bioleaching environments.
- 2004
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Ingår i: Appl Environ Microbiol. - 0099-2240 .- 1098-5336. ; 70:4, s. 2079-88
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Tidskriftsartikel (refereegranskat)abstract
- Three recently isolated extremely acidophilic archaeal strains have been shown to be phylogenetically similar to Ferroplasma acidiphilum Y(T) by 16S rRNA gene sequencing. All four Ferroplasma isolates were capable of growing chemoorganotrophically on yeast extract or a range of sugars and chemomixotrophically on ferrous iron and yeast extract or sugars, and isolate "Ferroplasma acidarmanus" Fer1(T) required much higher levels of organic carbon. All four isolates were facultative anaerobes, coupling chemoorganotrophic growth on yeast extract to the reduction of ferric iron. The temperature optima for the four isolates were between 35 and 42 degrees C and the pH optima were 1.0 to 1.7, and "F. acidarmanus" Fer1(T) was capable of growing at pH 0. The optimum yeast extract concentration for "F. acidarmanus" Fer1(T) was higher than that for the other three isolates. Phenotypic results suggested that isolate "F. acidarmanus" Fer1(T) is of a different species than the other three strains, and 16S rRNA sequence data, DNA-DNA similarity values, and two-dimensional polyacrylamide gel electrophoresis protein profiles clearly showed that strains DR1, MT17, and Y(T) group as a single species. "F. acidarmanus" Fer1(T) groups separately, and we propose the new species "F. acidarmanus" Fer1(T) sp. nov.
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| 3. |
- Hillier, Ladeana W, et al.
(författare)
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Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
- 2004
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Ingår i: Nature. - 0028-0836 .- 1476-4687. ; 432:7018, s. 695-716
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Tidskriftsartikel (refereegranskat)abstract
- We present here a draft genome sequence of the red jungle fowl, Gallus gallus. Because the chicken is a modern descendant of the dinosaurs and the first non-mammalian amniote to have its genome sequenced, the draft sequence of its genome--composed of approximately one billion base pairs of sequence and an estimated 20,000-23,000 genes--provides a new perspective on vertebrate genome evolution, while also improving the annotation of mammalian genomes. For example, the evolutionary distance between chicken and human provides high specificity in detecting functional elements, both non-coding and coding. Notably, many conserved non-coding sequences are far from genes and cannot be assigned to defined functional classes. In coding regions the evolutionary dynamics of protein domains and orthologous groups illustrate processes that distinguish the lineages leading to birds and mammals. The distinctive properties of avian microchromosomes, together with the inferred patterns of conserved synteny, provide additional insights into vertebrate chromosome architecture.
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