| 1. |
- Tuskan, G A, et al.
(författare)
-
The genome of black cottonwood, Populus trichocarpa (Torr. & Gray).
- 2006
-
Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 1095-9203 .- 0036-8075. ; 313:5793, s. 1596-604
-
Tidskriftsartikel (refereegranskat)abstract
- We report the draft genome of the black cottonwood tree, Populus trichocarpa. Integration of shotgun sequence assembly with genetic mapping enabled chromosome-scale reconstruction of the genome. More than 45,000 putative protein-coding genes were identified. Analysis of the assembled genome revealed a whole-genome duplication event; about 8000 pairs of duplicated genes from that event survived in the Populus genome. A second, older duplication event is indistinguishably coincident with the divergence of the Populus and Arabidopsis lineages. Nucleotide substitution, tandem gene duplication, and gross chromosomal rearrangement appear to proceed substantially more slowly in Populus than in Arabidopsis. Populus has more protein-coding genes than Arabidopsis, ranging on average from 1.4 to 1.6 putative Populus homologs for each Arabidopsis gene. However, the relative frequency of protein domains in the two genomes is similar. Overrepresented exceptions in Populus include genes associated with lignocellulosic wall biosynthesis, meristem development, disease resistance, and metabolite transport.
|
|
| 2. |
- Elsik, Christine G., et al.
(författare)
-
The Genome Sequence of Taurine Cattle : A Window to Ruminant Biology and Evolution
- 2009
-
Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 0036-8075 .- 1095-9203. ; 324:5926, s. 522-528
-
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.
|
|
| 3. |
- Abbondanno, U, et al.
(författare)
-
The data acquisition system of the neutron time-of-flight facility n_TOF at CERN
- 2005
-
Ingår i: Nuclear Instruments and Methods in Physics Research Section A. - : Elsevier BV. - 0168-9002 .- 1872-9576. ; 538:1-3, s. 692-702
-
Tidskriftsartikel (refereegranskat)abstract
- The n_TOF facility at CERN has been designed for the measurement of neutron capture, fission and (n, xn) cross-sections with high accuracy. This requires a flexible and-due to the high instantaneous neutron flux-almost dead time free data acquisition system. A scalable and versatile data solution has been designed based on 8-bit flash-ADCs with sampling rates up to 2 GHz and 8 Mbyte memory buffer. The software is written in C and C++ and is running on PCs equipped with RedHat Linux.
|
|
| 4. |
- Griffith, Obi L., et al.
(författare)
-
ORegAnno : an open-access community-driven resource for regulatory annotation
- 2008
-
Ingår i: Nucleic Acids Research. - : Oxford University Press (OUP). - 0305-1048 .- 1362-4962. ; 36:Database issue, s. D107-D113
-
Tidskriftsartikel (refereegranskat)abstract
- ORegAnno is an open-source, open-access database and literature curation system for community-based annotation of experimentally identified DNA regulatory regions, transcription factor binding sites and regulatory variants. The current release comprises 30 145 records curated from 922 publications and describing regulatory sequences for over 3853 genes and 465 transcription factors from 19 species. A new feature called the publication queue allows users to input relevant papers from scientific literature as targets for annotation. The queue contains 4438 gene regulation papers entered by experts and another 54 351 identified by text-mining methods. Users can enter or check out papers from the queue for manual curation using a series of user-friendly annotation pages. A typical record entry consists of species, sequence type, sequence, target gene, binding factor, experimental outcome and one or more lines of experimental evidence. An evidence ontology was developed to describe and categorize these experiments. Records are cross-referenced to Ensembl or Entrez gene identifiers, PubMed and dbSNP and can be visualized in the Ensembl or UCSC genome browsers. All data are freely available through search pages, XML data dumps or web services at: http://www.oreganno.org.
|
|
| 5. |
- Prusti, T., et al.
(författare)
-
A Roadmap for Delivering the Promise of Gaia
- 2009
-
Ingår i: IProceedings of the International Astronomical Union. IAU Symposium 254. ; , s. 483-486
-
Konferensbidrag (övrigt vetenskapligt/konstnärligt)
|
|
| 6. |
- Cornelissen, Johannes H C, et al.
(författare)
-
Global negative vegetation feedback to climate warming responses of leaf litter decomposition rates in cold biomes
- 2007
-
Ingår i: Ecology Letters. - : Wiley. - 1461-023X .- 1461-0248. ; 10:7, s. 619-627
-
Tidskriftsartikel (refereegranskat)abstract
- Whether climate change will turn cold biomes from large long-term carbon sinks into sources is hotly debated because of the great potential for ecosystem-mediated feedbacks to global climate. Critical are the direction, magnitude and generality of climate responses of plant litter decomposition. Here, we present the first quantitative analysis of the major climate-change-related drivers of litter decomposition rates in cold northern biomes worldwide.Leaf litters collected from the predominant species in 33 global change manipulation experiments in circum-arctic-alpine ecosystems were incubated simultaneously in two contrasting arctic life zones. We demonstrate that longer-term, large-scale changes to leaf litter decomposition will be driven primarily by both direct warming effects and concomitant shifts in plant growth form composition, with a much smaller role for changes in litter quality within species. Specifically, the ongoing warming-induced expansion of shrubs with recalcitrant leaf litter across cold biomes would constitute a negative feedback to global warming. Depending on the strength of other (previously reported) positive feedbacks of shrub expansion on soil carbon turnover, this may partly counteract direct warming enhancement of litter decomposition.
|
|
| 7. |
- Cornwell, William K., et al.
(författare)
-
Plant species traits are the predominant control on litter decomposition rates within biomes worldwide
- 2008
-
Ingår i: Ecology Letters. - : Wiley. - 1461-023X .- 1461-0248. ; 11:10, s. 1065-1071
-
Tidskriftsartikel (refereegranskat)abstract
- Worldwide decomposition rates depend both on climate and the legacy of plant functional traits as litter quality. To quantify the degree to which functional differentiation among species affects their litter decomposition rates, we brought together leaf trait and litter mass loss data for 818 species from 66 decomposition experiments on six continents. We show that: (i) the magnitude of species-driven differences is much larger than previously thought and greater than climate-driven variation; (ii) the decomposability of a species' litter is consistently correlated with that species' ecological strategy within different ecosystems globally, representing a new connection between whole plant carbon strategy and biogeochemical cycling. This connection between plant strategies and decomposability is crucial for both understanding vegetation-soil feedbacks, and for improving forecasts of the global carbon cycle.
|
|
| 8. |
- Dorrepaal, E, et al.
(författare)
-
Are growth forms consistent predictors of leaf litter quality and decomposability across peatlands along a latitudinal gradient?
- 2005
-
Ingår i: Journal of Ecology. - : Wiley. - 1365-2745 .- 0022-0477. ; 93:4, s. 817-828
-
Tidskriftsartikel (refereegranskat)abstract
- Plant growth forms are widely used to predict the effects of environmental changes, such as climate warming and increased nitrogen deposition, on plant communities, and the consequences of species shifts for carbon and nutrient cycling. We investigated whether the relationship between growth forms and patterns in litter quality and decomposition are independent of environmental conditions and whether growth forms are as good as litter chemistry at predicting decomposability. We used a natural, latitudinal gradient in NW Europe as a spatial analogue for future increases in temperature and nitrogen availability. Our screening of 70 species typical of Sphagnum-dominated peatlands showed that leaf litters of Sphagnum mosses, evergreen and deciduous shrubs, graminoids and forbs differed significantly in litter chemistry and that the ranking of the growth forms was independent of the region for all litter chemistry variables. Differences among growth forms were usually larger than differences related to the environmental gradient. After 8 and 20 months incubation in outdoor, Sphagnum-based decomposition beds, growth forms generally differed in decomposability, but these patterns varied with latitude. Sphagnum litters decomposed slower than other litters in all regions, again explaining its high representation in organic deposits of peatlands. Forb litters generally decomposed fastest, while the differences among the other growth forms were small, particularly at higher latitudes. Multiple regression analyses showed that growth forms were better at predicting leaf litter decomposition than chemical variables in warm-temperate peatlands with a high N-load, but less so in the subarctic, low-N region. Our results indicate that environmental changes may be less important in determining ecosystem leaf litter chemistry directly than are their indirect effects through changes in the relative abundance of growth forms. However, climatic and nutritional constraints in high-latitude peatlands promote convergence towards nutrient-efficient plant traits, resulting in similar decomposition rates of vascular growth forms despite differences in litter chemistry. The usefulness of the growth-form concept in predicting plant community controls on ecosystem functioning is therefore somewhat limited.
|
|
