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- Elsik, Christine G., et al.
(författare)
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The Genome Sequence of Taurine Cattle : A Window to Ruminant Biology and Evolution
- 2009
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Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 0036-8075 .- 1095-9203. ; 324:5926, s. 522-528
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Tidskriftsartikel (refereegranskat)abstract
- To understand the biology and evolution of ruminants, the cattle genome was sequenced to about sevenfold coverage. The cattle genome contains a minimum of 22,000 genes, with a core set of 14,345 orthologs shared among seven mammalian species of which 1217 are absent or undetected in noneutherian (marsupial or monotreme) genomes. Cattle-specific evolutionary breakpoint regions in chromosomes have a higher density of segmental duplications, enrichment of repetitive elements, and species-specific variations in genes associated with lactation and immune responsiveness. Genes involved in metabolism are generally highly conserved, although five metabolic genes are deleted or extensively diverged from their human orthologs. The cattle genome sequence thus provides a resource for understanding mammalian evolution and accelerating livestock genetic improvement for milk and meat production.
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| 2. |
- Szatmari, Peter, et al.
(författare)
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Mapping autism risk loci using genetic linkage and chromosomal rearrangements.
- 2007
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Ingår i: Nature Genetics. - : Springer Science and Business Media LLC. - 1061-4036 .- 1546-1718. ; 39:3, s. 319-328
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Tidskriftsartikel (refereegranskat)abstract
- Autism spectrum disorders (ASDs) are common, heritable neurodevelopmental conditions. The genetic architecture of ASDs is complex, requiring large samples to overcome heterogeneity. Here we broaden coverage and sample size relative to other studies of ASDs by using Affymetrix 10K SNP arrays and 1,168 families with at least two affected individuals, performing the largest linkage scan to date while also analyzing copy number variation in these families. Linkage and copy number variation analyses implicate chromosome 11p12-p13 and neurexins, respectively, among other candidate loci. Neurexins team with previously implicated neuroligins for glutamatergic synaptogenesis, highlighting glutamate-related genes as promising candidates for contributing to ASDs.
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| 3. |
- Clark, Andrew G., et al.
(författare)
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Evolution of genes and genomes on the Drosophila phylogeny
- 2007
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 450:7167, s. 203-218
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Tidskriftsartikel (refereegranskat)abstract
- Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves the precision and sensitivity of evolutionary inference, producing more robust results than single-genome analyses can provide. The genomes of 12 Drosophila species, ten of which are presented here for the first time (sechellia, simulans, yakuba, erecta, ananassae, persimilis, willistoni, mojavensis, virilis and grimshawi), illustrate how rates and patterns of sequence divergence across taxa can illuminate evolutionary processes on a genomic scale. These genome sequences augment the formidable genetic tools that have made Drosophila melanogaster a pre-eminent model for animal genetics, and will further catalyse fundamental research on mechanisms of development, cell biology, genetics, disease, neurobiology, behaviour, physiology and evolution. Despite remarkable similarities among these Drosophila species, we identified many putatively non-neutral changes in protein-coding genes, non-coding RNA genes, and cis-regulatory regions. These may prove to underlie differences in the ecology and behaviour of these diverse species.
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| 7. |
- Barres, R., et al.
(författare)
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Non-CpG methylation of the PGC-1alpha promoter through DNMT3B controls mitochondrial density
- 2009
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Ingår i: Cell Metabolism. - : Elsevier BV. - 1550-4131 .- 1932-7420. ; 10:3, s. 189-98
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Tidskriftsartikel (refereegranskat)abstract
- Epigenetic modification through DNA methylation is implicated in metabolic disease. Using whole-genome promoter methylation analysis of skeletal muscle from normal glucose-tolerant and type 2 diabetic subjects, we identified cytosine hypermethylation of peroxisome proliferator-activated receptor gamma (PPARgamma) coactivator-1 alpha (PGC-1alpha) in diabetic subjects. Methylation levels were negatively correlated with PGC-1alpha mRNA and mitochondrial DNA (mtDNA). Bisulfite sequencing revealed that the highest proportion of cytosine methylation within PGC-1alpha was found within non-CpG nucleotides. Non-CpG methylation was acutely increased in human myotubes by exposure to tumor necrosis factor-alpha (TNF-alpha) or free fatty acids, but not insulin or glucose. Selective silencing of the DNA methyltransferase 3B (DNMT3B), but not DNMT1 or DNMT3A, prevented palmitate-induced non-CpG methylation of PGC-1alpha and decreased mtDNA and PGC-1alpha mRNA. We provide evidence for PGC-1alpha hypermethylation, concomitant with reduced mitochondrial content in type 2 diabetic patients, and link DNMT3B to the acute fatty-acid-induced non-CpG methylation of PGC-1alpha promoter.
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| 9. |
- Boelens, O. J., et al.
(författare)
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Description of the F-16XL geometry and computational grids used in CAWAPI
- 2007
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Ingår i: Collection of Technical Papers - 45th AIAA Aerospace Sciences Meeting. - 1563478900 - 9781563478901 ; , s. 5866-5878
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Konferensbidrag (refereegranskat)abstract
- The objective of the Cranked-Arrow Wing Aerodynamics Project International (CAWAPI) was to allow a comprehensive validation of Computational Fluid Dynamics methods against the CAWAP flight database. A major part of this work involved the generation of high-quality computational grids. Prior to the grid generation an IGES file containing the air tight geometry of the F-16XL aircraft was generated by a cooperation of some of the CAWAPI partners. Based on this geometry description both structured and unstructured grids have been generated. The baseline structured (multi-block) grid (and a family of derived grids) has been generated by the National Aerospace Laboratory NLR. The baseline all-tetrahedral and hybrid unstructured grids were generated at NASA Langley Research Center and the U.S. Air Force Academy, respectively. To provide more geometrical resolution, additional unstructured grids were generated at EADS-MAS, the UTSimCenter, and Boeing Phantom Works. All the grids generated within the framework of CAWAPI will be discussed.
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| 10. |
- Boelens, O. J., et al.
(författare)
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F-16XL Geometry and Computational Grids Used in Cranked-Arrow Wing Aerodynamics Project International
- 2009
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Ingår i: Journal of Aircraft. - : American Institute of Aeronautics and Astronautics (AIAA). - 0021-8669 .- 1533-3868. ; 46:2, s. 369-376
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Tidskriftsartikel (refereegranskat)abstract
- The objective of the Cranked-Arrow Wing Aerodynamics Project International was to allow a comprehensive validation of computational fluid dynamics methods against the Cranked-Arrow Wing Aerodynamics Project flight database. A major part of this work involved the generation of high-quality computational grids. Before the grid generation, an airtight geometry of the F-16XL, aircraft was generated by a cooperation of the Cranked-Arrow Wing Aerodynamics Project International partners. Based on this geometry description, both structured and unstructured grids have been generated. The baseline structured (multiblock) grid (and a family of derived grids) has been generated by the National Aerospace Laboratory. Although the algorithms used by the National Aerospace Laboratory had become available just before the Cranked-Arrow Wing Aerodynamics Project International and thus only a limited experience with their application to such a complex configuration had been gained, a grid of good quality was generated well within four weeks. This time compared favorably with that required to produce the unstructured grids in the Cranked-Arrow Wing Aerodynamics Project International. The baseline all-tetrahedral and hybrid unstructured grids have been generated at NASA Langley Research Center and the U.S. Air Force Academy, respectively. To provide more geometrical resolution, trimmed unstructured grids have been generated at the European Aeronautic Defence and Space Company's Military Air Systems, University of Tennessee at Chattanooga SimCenter, Boeing Phantom Works, Royal Institute of Technology, and the Swedish Defence Research Agency. All grids generated within the framework of the Cranked-Arrow Wing Aerodynamics Project International will be discussed in the paper. Both results obtained on the structured grids and the unstructured grids showed a significant improvement in agreement with flight-test data in comparison with those obtained on the structured multiblock grid used during the Cranked-Arrow Wing Aerodynamics Project.
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