Avaliação da tolerância de acesso do gênero Paspalum ao sombreamento.

Editado por Ana Rita de Araújo Nogueira, Simone Cristina Meo Niciura

Análise do Fluxo de Co2 sobre uma Cultura de Soja

Análise do fluxo de CO2 sobre uma cultura de soj

Implications of the three-dimensional chromatin organization for genome evolution in a fungal plant pathogen

The spatial organization of eukaryotic genomes is linked to their biological functions, although it is not clear how this impacts the overall evolution of a genome. Here, we uncover the three-dimensional (3D) genome organization of the phytopathogen Verticillium dahliae, known to possess distinct genomic regions, designated adaptive genomic regions (AGRs), enriched in transposable elements and genes that mediate host infection. Short-range DNA interactions form clear topologically associating domains (TADs) with gene-rich boundaries that show reduced levels of gene expression and reduced genomic variation. Intriguingly, TADs are less clearly insulated in AGRs than in the core genome. At a global scale, the genome contains bipartite long-range interactions, particularly enriched for AGRs and more generally containing segmental duplications. Notably, the patterns observed for V. dahliae are also present in other Verticillium species. Thus, our analysis links 3D genome organization to evolutionary features conserved throughout the Verticillium genus

Towards the first kaonic deuterium measurement with the SIDDHARTA-2 experiment at DAΦNE

The SIDDHARTA-2 experiment is going to perform the longawaited high precision X-ray measurement of kaonic deuterium, obtaining for the first time the values of the shift and the width induced by the strong interaction on the fundamental level. By combining this unprecedented result with the analogous kaonic hydrogen measurement performed by the SIDDHARTA experiment, it will be possible to extract the isospin-dependent antikaon-nucleon scattering lengths, providing direct information on the Quantum Chromodynamics (QCD) in the non-perturbative Chromodynamics (QCD) in the non-perturbative regime in the strangeness sector. This paper describes the SIDDHARTA-2 experiment, presently installed at the DAΦNE collider of Istituto Nazionale di Fisica Nucleare-Laboratori Nazionali di Frascati, and the results obtained during the kaonic helium run, preparatory for the kaonic deuterium data taking campaign planned for 2022

Respostas produtivas de acessos de Paspalum spp. ao sombreamento artificial.

O objetivo desse trabalho foi avaliar os efeitos do sombreamento em parâmetros de crescimento e produção de catorze acessos de Paspalum spp.. Os acessos foram conduzidos em vasos irrigados e adubados sob quatro níveis de sombreamento artificial (0%, 45%, 59% e 76%), utilizando-se telas de polipropileno, durante três ciclos de crescimento, em São Carlos, SP, Brasil. Foram avaliados o número de perfilhos por vaso, altura do perfilho médio de cada planta, área foliar, área foliar específica e biomassa da parte aérea. Foi realizada uma análise de componentes principais para a associação dos regimes de sombreamento e das características morfológicas e produtivas dos acessos. Os dados de biomassa da parte aérea foram comparados pelo teste de Tukey a 5% de probabilidade. Os resultados obtidos mostraram que o sombreamento proporcionou alterações nas características morfológicas (perfilhamento, altura e área foliar) e na biomassa da parte aérea dos acessos avaliados. Dos catorze acessos estudados, sete apresentaram regressão quadrática significativa entre o nível de sombreamento e a biomassa da parte aérea. Para programas de melhoramento, quando se objetiva produzir materiais mais adaptados ao ambiente sombreado, se destacam Paspalum malacophyllum BGP-293, P. urvillei x P. dilatatum BGP-238, P. regnellii BGP-258 e P. dilatatum BGP-234 e que devem ser avaliados sob sombreamento natural para confirmar seu potencial de utilização em sistemas silvipastoris

Permeation through the Cell Membrane of a Boron-Based β-Lactamase Inhibitor

Bacteria express beta-lactamases to counteract the beneficial action of antibiotics. Benzo[b]-thiophene-2-boronic acid (BZB) derivatives are β-lactamase inhibitors and, as such, promising compounds to be associated with β-lactam antibacterial therapies. The uncharged form of BZB, in particular, is suggested to diffuse through the outer membrane of Gram negative bacteria. In this study, through the combination of electrophysiological experiments across reconstituted PC/n-decane bilayers and metadynamics-based free energy calculations, we investigate the permeation mechanism of boronic compounds. Our experimental data establish that BZB passes through the membrane, while computer simulations provide hints for the existence of an aqueous, water-filled monomolecular channel. These findings provide new perspectives for the design of boronic acid derivatives with high membrane permeability

Using metadynamics to explore complex free-energy landscapes

Metadynamics is an atomistic simulation technique that allows, within the same framework, acceleration of rare events and estimation of the free energy of complex molecular systems. It is based on iteratively \u2018filling\u2019 the potential energy of the system by a sum of Gaussians centred along the trajectory followed by a suitably chosen set of collective variables (CVs), thereby forcing the system to migrate from one minimum to the next. The power of metadynamics is demonstrated by the large number of extensions and variants that have been developed. The first scope of this Technical Review is to present a critical comparison of these variants, discussing their advantages and disadvantages. The effectiveness of metadynamics, and that of the numerous alternative methods, is strongly influenced by the choice of the CVs. If an important variable is neglected, the resulting estimate of the free energy is unreliable, and predicted transition mechanisms may be qualitatively wrong. The second scope of this Technical Review is to discuss how the CVs should be selected, how to verify whether the chosen CVs are sufficient or redundant, and how to iteratively improve the CVs using machine learning approaches

A highly polymorphic effector protein promotes fungal virulence through suppression of plant-associated Actinobacteria

Plant pathogens secrete effector proteins to support host colonization through a wide range of molecular mechanisms, while plant immune systems evolved receptors to recognize effectors or their activities to mount immune responses to halt pathogens. Importantly, plants do not act as single organisms, but rather as holobionts that actively shape their microbiota as a determinant of health. The soil-borne fungal pathogen Verticillium dahliae was recently demonstrated to exploit the VdAve1 effector to manipulate the host microbiota to promote vascular wilt disease in the absence of the corresponding immune receptor Ve1. We identify a multiallelic V. dahliae gene displaying c. 65% sequence similarity to VdAve1, named VdAve1-like (VdAve1L), which shows extreme sequence variation, including alleles that encode dysfunctional proteins, indicative of selection pressure to overcome host recognition. We show that the orphan cell surface receptor Ve2, encoded at the Ve locus, does not recognize VdAve1L. Additionally, we demonstrate that the full-length variant VdAve1L2 possesses antimicrobial activity, like VdAve1, yet with a divergent activity spectrum, that is exploited by V. dahliae to mediate tomato colonization through the direct suppression of antagonistic Actinobacteria in the host microbiota. Our findings open up strategies for more targeted biocontrol against microbial plant pathogens

Accurate multiple time step in biased molecular simulations

Many recently introduced enhanced sampling techniques are based on biasing coarse descriptors (collective variables) of a molecular system on the fly. Sometimes the calculation of such collective variables is expensive and becomes a bottleneck in molecular dynamics simulations. An algorithm to treat smooth biasing forces within a multiple time step framework is here discussed. The implementation is simple and allows a speed up when expensive collective variables are employed. The gain can be substantial when using massively parallel or GPU-based molecular dynamics software. Moreover, a theoretical framework to assess the sampling accuracy is introduced, which can be used to assess the choice of the integration time step in both single and multiple time step biased simulations