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- Herrgård, Markus J, et al.
(author)
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A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology
- 2008
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In: Nature Biotechnology. ; 26:10, s. 1155-1160
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Journal article (peer-reviewed)abstract
- Genomic data allow the large-scale manual or semi-automated assembly of metabolic network reconstructions, which provide highly curated organism-specific knowledge bases. Although several genome-scale network reconstructions describe Saccharomyces cerevisiae metabolism, they differ in scope and content, and use different terminologies to describe the same chemical entities. This make comparisons between them difficult and underscores the desirability of a consolidated metabolic network that collects and formalizes the 'community knowledge' of yeast metabolism. We describe how we have produced a consensus metabolic network reconstruction for S. cerevisiae. In drafting it, we placed special emphasis on referencing molecules to persistent databases or using database-independent forms, such as SMILES or InChl strings, as this permits their chemical structure to be represented unambiguously and in a manner that permits automated reasoning. The reconstruction is readily available via a publicly accessible database and in the Systems Biology Markup Language (http://www.comp-sys-bio.org/yeastnet). It can be maintained as a resource that serves as a common denominator for studying the systems biology of yeast. Similar strategies should benefit communities studying genome-scale metabolic networks of other organisms.
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| 2. |
- Rauch, Sebastien, 1971, et al.
(author)
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Platinum group elements in airborne particles in Mexico City
- 2006
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In: Environmental Science & Technology. ; 40:24, s. 7554 -7560
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Journal article (peer-reviewed)abstract
- Automobile exhaust catalysts using platinum group elements (PGE) have been mandatory on new cars in the Mexico City Metropolitan Area (MCMA) since 1991. Platinum, Pd, Rh, Ir, and Os concentrations and the isotopic composition of Os were determined in PM10 samples from the MCMA. Samples were prepared by isotope dilution NiS fire assay, and analysis was performed by magnetic sector ICP-MS using a single collector instrument for Pt, Pd, Rh, and Ir analysis and a multicollector instrument for Os analysis. Pt, Pd, and Rh concentrations at a downtown location (Merced) increased from 1.7 pg of Pt m-3, 2.7 (4.0) pg of Pd m-3, and 1.2 ± 0.9 pg of Rh m-3 in 1991 to 9.6 ± 1.8 pg of Pt m-3, 10.2 ± 1.8 pg of Pd m-3, and 2.8 ± 0.6 pg of Rh m-3 in 2003. Concentrations at five sites in MCMA in 2003 averaged 9.3 ± 1.9 pg of Pt m-3, 11 ± 4 pg of Pd m-3, and 3.2 ± 1.0 pg of Rh m-3. In contrast, Ir and Os concentrations and Os isotopic composition remained relatively constant and were 0.08 ± 0.04 pg of Ir m-3, 0.030 ± 0.007 pg of Os m-3, and 0.60 ± 0.04, respectively, in the MCMA in 2003. Elevated Pt, Pd, and Rh concentrations in the MCMA are attributed to automobile catalysts. A Pt-Pd-Rh concentration peak in 1993 suggests that early catalysts emitted a larger amount of PGE, possibly due to factors inherent in the technology or the use of inappropriate gasoline. Therefore, this study suggests that the current introduction of automobile catalysts in developing countries may result in elevated PGE concentrations if it is not accompanied by infrastructures and policy measures supporting their efficient use.
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