| 1. |
- Canales, Javier, et al.
(författare)
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Gene expression profiling in the stem of young maritime pine trees : detection of ammonium stress-responsive genes in the apex
- 2011
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Ingår i: Trees. - : Springer Science and Business Media LLC. - 0931-1890 .- 1432-2285. ; 26:2, s. 609-619
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Tidskriftsartikel (refereegranskat)abstract
- The shoots of young conifer trees represent an interesting model to study the development and growth of conifers from meristematic cells in the shoot apex to differentiated tissues at the shoot base. In this work, microarray analysis was used to monitor contrasting patterns of gene expression between the apex and the base ofmaritime pine shoots. A group of differentially expressed genes were selected and validated by examining their relative expression levels in different sections along thestem, from the top to the bottom. After validation of the microarray data, additional geneexpression analyses were also performed in the shoots of young maritime pine treesexposed to different levels of ammonium nutrition. Our results show that the apex ofmaritime pine trees is extremely sensitive to conditions of ammonium excess or deficiency, as revealed by the observed changes in the expression of stress-responsivegenes. This new knowledge may be used to precocious detection of early symptoms of nitrogen nutritional stresses, thereby increasing survival and growth rates of young treesin managed forests.
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| 2. |
- Fernández-Pozo, Noé, et al.
(författare)
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EuroPineDB : a high-coverage web database for maritime pine transcriptome
- 2011
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Ingår i: BMC Genomics. - : Springer Science and Business Media LLC. - 1471-2164. ; 12, s. 366-
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Tidskriftsartikel (refereegranskat)abstract
- BACKGROUND: Pinus pinaster is an economically and ecologically important species that is becoming a woody gymnosperm model. Its enormous genome size makes whole-genome sequencing approaches are hard to apply. Therefore, the expressed portion of the genome has to be characterised and the results and annotations have to be stored in dedicated databases. DESCRIPTION: EuroPineDB is the largest sequence collection available for a single pine species, Pinus pinaster (maritime pine), since it comprises 951 641 raw sequence reads obtained from non-normalised cDNA libraries and high-throughput sequencing from adult (xylem, phloem, roots, stem, needles, cones, strobili) and embryonic (germinated embryos, buds, callus) maritime pine tissues. Using open-source tools, sequences were optimally pre-processed, assembled, and extensively annotated (GO, EC and KEGG terms, descriptions, SNPs, SSRs, ORFs and InterPro codes). As a result, a 10.5× P. pinaster genome was covered and assembled in 55 322 UniGenes. A total of 32 919 (59.5%) of P. pinaster UniGenes were annotated with at least one description, revealing at least 18 466 different genes. The complete database, which is designed to be scalable, maintainable, and expandable, is freely available at: http://www.scbi.uma.es/pindb/. It can be retrieved by gene libraries, pine species, annotations, UniGenes and microarrays (i.e., the sequences are distributed in two-colour microarrays; this is the only conifer database that provides this information) and will be periodically updated. Small assemblies can be viewed using a dedicated visualisation tool that connects them with SNPs. Any sequence or annotation set shown on-screen can be downloaded. Retrieval mechanisms for sequences and gene annotations are provided. CONCLUSIONS: The EuroPineDB with its integrated information can be used to reveal new knowledge, offers an easy-to-use collection of information to directly support experimental work (including microarray hybridisation), and provides deeper knowledge on the maritime pine transcriptome.
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| 3. |
- Tello Marmolejo, Javier, 1995, et al.
(författare)
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A water droplet as a toy atom
- 2022
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Ingår i: Proceedings of SPIE - The International Society for Optical Engineering. - : SPIE. - 0277-786X .- 1996-756X. ; 12198
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Konferensbidrag (refereegranskat)abstract
- Common atomic physics courses jump from the square and harmonic well potentials straight to the hydrogen atom. However, there is a missing link in between, the spherical well potential. Although it is included in some textbooks, the lack of an experimental backing means the problem quickly becomes mathematically complex. Here we have built an optical toy atom using the scattering of an optically levitated, evaporating water droplet. We find a greatly simplified Mie scattering spectrum composed of a series of evolving Fano resonances organized in a set of combs. The whole spectrum can be intuitively explained through an analogy to a quantum spherical well potential. This produces a model of an atom including ground and excited states, quantized angular momentum, and tunneling.
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| 4. |
- Tello Marmolejo, Javier, 1995, et al.
(författare)
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Fano Combs in the Directional Mie Scattering of a Water Droplet
- 2023
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Ingår i: Physical Review Letters. - 1079-7114 .- 0031-9007. ; 130:4
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Tidskriftsartikel (refereegranskat)abstract
- When light scatters off a sphere, it produces a rich Mie spectrum full of overlapping resonances. Single resonances can be explained with a quantum analogy and result in Fano profiles. However, the full spectrum is so complex that recognizable patterns have not been found, and is only understood by comparing to numerical simulations. Here we show the directional Mie spectrum of evaporating water droplets arranged in consecutive Fano Combs. We then fully explain it by expanding the quantum analogy. This turns the droplet into an "optical atom"with angular momentum, tunneling, and excited states.
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