The Generalized Stochastic Microdosimetric Model: the main formulation

The present work introduces a rigorous stochastic model, named Generalized Stochastic Microdosimetric Model (GSM2), to describe biological damage induced by ionizing radiation. Starting from microdosimetric spectra of energy deposition in tissue, we derive a master equation describing the time evolution of the probability density function of lethal and potentially lethal DNA damage induced by radiation in a cell nucleus. The resulting probability distribution is not required to satisfy any a priori assumption. Furthermore, we generalized the master equation to consider damage induced by a continuous dose delivery. In addition, spatial features and damage movement inside the nucleus have been taken into account. In doing so, we provide a general mathematical setting to fully describe the spatiotemporal damage formation and evolution in a cell nucleus. Finally, we provide numerical solutions of the master equation exploiting Monte Carlo simulations to validate the accuracy of GSM2. Development of GSM2 can lead to improved modeling of radiation damage to both tumor and normal tissues, and thereby impact treatment regimens for better tumor control and reduced normal tissue toxicities

RNA-­seq analysis of Eucalyptus genotypes that differ in carbon allocation.

Carbon allocation is the process of translocation of photosynthate from source to sink organs, and though its physiology is well known, the genetic mechanisms involved in its regulation are still poorly understood. Since differences in levels of gene expression may largely explain the observed phenotypic variation, and there is great variability among species of Eucalyptus, we decided to perform a gene expression analysis of four contrasting Eucalyptus genotypes to gain insight into the mechanisms that lead to differences in carbon allocation.X-MEETING 2012

Computação da Seleção Genômica Ampla (GWS).

Métodos para GWS; Teoria dos métodos de regressão; Computação do método Random (Ridge) Regression BLUP (RR-BLUP/GWS); Fenótipos corrigidos; Frequências alélicas, variância dos marcadores e herdabilidade; Marcadores codominantes (SNP) ? Modelo genotípico; Marcadores dominantes (DArT) - Modelo genotípico; Marcadores codominantes (SNP) ? Modelo gamético ou alélico; Número de marcadores com efeitos significativos; Populações de estimação, validação e seleção; População de validação e Jacknife; Correlação e regressão entre valores genéticos preditos e fenótipos na população de validação; Análise de associação na GWAS; Software Selegen Genômica: Random (Ridge) Regression BLUP: RR-BLUP/GWS; Exemplo aplicado ao melhoramento do eucalipto.bitstream/item/31426/1/Doc210.pd

High realized accuracies of genomic selection for volume growth and wood density in Eucalyptus breeding populations with contrasting effective sizes.

W235: Forest Trees

Métodos de RT-PCR e de hibridização Dot Blot para detecção universal de tospovirus

Transcriptase reverse - polymerase chain reaction (RT-PCR) and dot blot hybridization with digoxigenin-labeled probes were applied for the universal detection of Tospovirus species. The virus species tested were Tomato spotted wilt virus, Tomato chlorotic spot virus, Groundnut ringspot virus, Chrysanthemum stem necrosis virus, Impatiens necrotic spot virus, Zucchini lethal chlorosis virus, Iris yellow spot virus. Primers for PCR amplification were designed to match conserved regions of the tospovirus genome. RT-PCR using distinct primer combinations was unable to simultaneously amplify all tospovirus species and consistently failed to detect ZLCV and IYSV in total RNA extracts. However, all tospovirus species were detected by RT-PCR when viral RNA was used as template. RNA-specific PCR products were used as probes for dot hybridization. This assay with a M probe (directed to the G1/G2 gene) detected at low stringency conditions all Tospovirus species, except IYSV. At low stringency conditions, the L non-radioactive probe detected the seven Tospovirus species in a single assay. This method for broad spectrum detection can be potentially employed in quarantine services for indexing in vitro germplasm.Visando a um método para a detecção universal de tospovírus, utilizaram-se as técnicas de "Transcriptase reverse - polymerase chain reaction" (RT-PCR) e hibridização com sondas marcadas com digoxigenina. As espécies de tospovirus testadas foram: Tomato spotted wilt virus, Tomato chlorotic spot virus, Groundnut ringspot virus, Chrysanthemum stem necrosis virus, Impatiens necrotic spot virus, Zucchini lethal chlorosis virus, Iris yellow spot virus. Os oligonucleotídeos foram sintetizados para anelar em regiões conservadas do genoma viral, sendo os produtos de PCR utilizados como sondas para hibridização através de "dot blot". Através de RT-PCR, utilizando-se diferentes combinações de oligonucleotídeos, somente foi possível a amplificação de todas as espécies quando se utilizou RNA de vírus purificado, sendo que, para a detecção a partir de RNA total, a RT-PCR apresentou problemas para a detecção das espécies ZLCV e IYSV. Sob condições de baixa adstringência, os testes de hibridização por "dot blot" com a sonda M (correspondente ao gene G1/G2) detectaram todas as espécies testadas, exceto IYSV. Com a sonda L, também sob condições de baixa adstringência, pôde-se detectar todas as espécies de tospovirus testadas simultaneamente em um único ensaio. Este método de detecção pode ser utilizado em serviços de quarentena e para indexação de germoplasma in vitro