Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana

We present here the annotation of the complete genome of rice Oryza sativa L. ssp. japonica cultivar Nipponbare. All functional annotations for proteins and non-protein-coding RNA (npRNA) candidates were manually curated. Functions were identified or inferred in 19,969 (70%) of the proteins, and 131 possible npRNAs (including 58 antisense transcripts) were found. Almost 5000 annotated protein-coding genes were found to be disrupted in insertional mutant lines, which will accelerate future experimental validation of the annotations. The rice loci were determined by using cDNA sequences obtained from rice and other representative cereals. Our conservative estimate based on these loci and an extrapolation suggested that the gene number of rice is ~32,000, which is smaller than previous estimates. We conducted comparative analyses between rice and Arabidopsis thaliana and found that both genomes possessed several lineage-specific genes, which might account for the observed differences between these species, while they had similar sets of predicted functional domains among the protein sequences. A system to control translational efficiency seems to be conserved across large evolutionary distances. Moreover, the evolutionary process of protein-coding genes was examined. Our results suggest that natural selection may have played a role for duplicated genes in both species, so that duplication was suppressed or favored in a manner that depended on the function of a gene

Anchorage of VEGF to the extracellular matrix conveys differential signaling responses to endothelial cells

Matrix-bound VEGF elicits more distinct vascular effects than soluble VEGF, including prolonged VEGFR2 activation with altered patterns of tyrosine activation and downstream enhancement of the p38/MAPK pathway

Search for dark matter produced in association with bottom or top quarks in √s = 13 TeV pp collisions with the ATLAS detector

A search for weakly interacting massive particle dark matter produced in association with bottom or top quarks is presented. Final states containing third-generation quarks and miss- ing transverse momentum are considered. The analysis uses 36.1 fb−1 of proton–proton collision data recorded by the ATLAS experiment at √s = 13 TeV in 2015 and 2016. No significant excess of events above the estimated backgrounds is observed. The results are in- terpreted in the framework of simplified models of spin-0 dark-matter mediators. For colour- neutral spin-0 mediators produced in association with top quarks and decaying into a pair of dark-matter particles, mediator masses below 50 GeV are excluded assuming a dark-matter candidate mass of 1 GeV and unitary couplings. For scalar and pseudoscalar mediators produced in association with bottom quarks, the search sets limits on the production cross- section of 300 times the predicted rate for mediators with masses between 10 and 50 GeV and assuming a dark-matter mass of 1 GeV and unitary coupling. Constraints on colour- charged scalar simplified models are also presented. Assuming a dark-matter particle mass of 35 GeV, mediator particles with mass below 1.1 TeV are excluded for couplings yielding a dark-matter relic density consistent with measurements

Um acervo, uma coleção e três problemas: a Coleção Jacques Pilon da Biblioteca da FAUUSP

Este artigo examina a constituição do Acervo de Projetos de arquitetura da Biblioteca da Faculdade de Arquitetura e Urbanismo da Universidade de São Paulo (FAUUSP), o tratamento da Coleção Jacques Pilon e os rendimentos do projeto de arquitetura como fonte documental a partir de três questões interligadas: a constituição do campo arquitetônico no Brasil; a história de São Paulo e sua arquitetura; e a contribuição dos arquitetos estrangeiros para a construção da cidade entre 1930 e 1960. A partir da abordagem de novas e velhas fontes de pesquisa, procura-se articular a história da arquitetura com outros campos do conhecimento nem sempre a ela relacionados, mas que juntos podem contribuir para uma leitura mais complexa da produção arquitetônica e para os esforços de revisão da historiografia da arquitetura moderna no Brasil.This article examines the establishment of the Archive of Projects of the Library of the Faculty of Architecture and Urbanism of the University of Sao Paulo (FAUUSP), the treatment of the Collection Jacques Pilon and the architectural design as a documentary source from three interconnected issues: the constitution of the architectural field in Brazil; the history of São Paulo and its architecture and the contribution of foreign architects to build the city between the years 1930 and 1960. From the approach of new and old sources of research, this article seeks to articulate the History of Architecture with other fields of knowledge not always related to it, but that together it can contribute to a more complex reading of architectural production and to efforts of reviewing the historiography of modern architecture in Brazil