966 resultados para Prospecção clonal
Resumo:
Immunogenicity of a long 20-mer NY-ESO-1f peptide vaccine was evaluated in a lung cancer patient TK-f01, immunized with the peptide with Picibanil OK-432 and Montanide ISA-51. We showed that internalization of the peptide was necessary to present CD8 T-cell epitopes on APC, contrasting with the direct presentation of the short epitope. CD8 T-cell responses restricted to all five HLA class I alleles were induced in the patient after the peptide vaccination. Clonal analysis showed that B*35:01 and B*52:01-restricted CD8 T-cell responses were the two dominant responses. The minimal epitopes recognized by A*24:02, B*35:01, B*52:01 and C*12:02-restricted CD8 T-cell clones were defined and peptide/HLA tetramers were produced. NY-ESO-1 91-101 on A*24:02, NY-ESO-1 92-102 on B*35:01, NY-ESO-1 96-104 on B*52:01 and NY-ESO-1 96-104 on C*12:02 were new epitopes first defined in this study. Identification of the A*24:02 epitope is highly relevant for studying the Japanese population because of its high expression frequency (60%). High affinity CD8 T-cells recognizing tumor cells naturally expressing the epitopes and matched HLA were induced at a significant level. The findings suggest the usefulness of a long 20-mer NY-ESO-1f peptide harboring multiple CD8 T-cell epitopes as an NY-ESO-1 vaccine. Characterization of CD8 T-cell responses in immunomonitoring using peptide/HLA tetramers revealed that multiple CD8 T-cell responses comprised the dominant response.
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Os objetivos deste trabalho foram estimar coeficientes de repetibilidade (r), comparar a eficiência das metodologias utilizadas no processo de estimação, e determinar o número de avaliações necessárias à seleção clonal de cajueiro-anão (Anacardium occidentale L.) precoce. As metodologias aplicadas para estimação do coeficiente de repetibilidade constaram da análise de variância, na qual o efeito temporário do ambiente é removido do erro (ANOVA); de análise dos componentes principais obtidos da matriz de correlações (CPCOR) e da matriz de variâncias e covariâncias fenotípicas (CPCOV); e da análise estrutural, com base no autovalor teórico da matriz de correlações ou correlação média (AECOR). Foram avaliados, em trinta clones, os caracteres altura da planta (AP), diâmetro da copa (DC) e produção de castanha (PC), durante cinco anos. Verificou-se que em relação aos caracteres AP e DC os valores de r variaram de 0,85 (ANOVA) a 0,96 (CPCOV). Quanto à produção, os valores de r foram de 0,51 (ANOVA) a 0,88 (CPCOV). Desta forma, constatou-se que o método de componentes principais utilizando a matriz de variâncias e covariâncias fenotípicas é mais eficiente para estimação do coeficiente de repetibilidade, sobretudo no que se refere ao carácter produção de castanha. Observou-se que são suficientes duas medições da AP e do DC, e três medições da PC no processo seletivo.
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We describe an improved multiple-locus variable-number tandem-repeat (VNTR) analysis (MLVA) scheme for genotyping Staphylococcus aureus. We compare its performance to those of multilocus sequence typing (MLST) and spa typing in a survey of 309 strains. This collection includes 87 epidemic methicillin-resistant S. aureus (MRSA) strains of the Harmony collection, 75 clinical strains representing the major MLST clonal complexes (CCs) (50 methicillin-sensitive S. aureus [MSSA] and 25 MRSA), 135 nasal carriage strains (133 MSSA and 2 MRSA), and 13 published S. aureus genome sequences. The results show excellent concordance between the techniques' results and demonstrate that the discriminatory power of MLVA is higher than those of both MLST and spa typing. Two hundred forty-two genotypes are discriminated with 14 VNTR loci (diversity index, 0.9965; 95% confidence interval, 0.9947 to 0.9984). Using a cutoff value of 45%, 21 clusters are observed, corresponding to the CCs previously defined by MLST. The variability of the different tandem repeats allows epidemiological studies, as well as follow-up of the evolution of CCs and the identification of potential ancestors. The 14 loci can conveniently be analyzed in two steps, based upon a first-line simplified assay comprising a subset of 10 loci (panel 1) and a second subset of 4 loci (panel 2) that provides higher resolution when needed. In conclusion, the MLVA scheme proposed here, in combination with available on-line genotyping databases (including http://mlva.u-psud.fr/), multiplexing, and automatic sizing, can provide a basis for almost-real-time large-scale population monitoring of S. aureus.
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Este trabalho objetivou estimar parâmetros genéticos e predizer os valores genéticos aditivos e genotípicos de clones amazônicos de seringueira em relação a características de qualidade da borracha e do látex a partir de genealogia envolvendo 15 clones e 250 rametes. As estimativas de herdabilidade no sentido amplo, , foram de 0,4152 e 0,6357, com relação a teores de borracha seca e plasticidade após 30 minutos, respectivamente, o que torna possível obter altos ganhos genéticos via seleção clonal. Os clones IAN 873 e Fx 3899 apresentaram os maiores valores genéticos aditivos e genotípicos em relação a teores de borracha seca, enquanto o clone IAN 6158 destacou-se quanto aos valores genotípicos relativos às características de plasticidade após 30 minutos, e índice de retenção da plasticidade.
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Este trabalho teve por objetivo estudar a variabilidade genética por meio de testes de progênies e determinar o ganho genético por meio de seleção individual, combinada e índice multiefeito, em Pinus caribaea var. hondurensis. Foram instalados dois testes de progênie em Tibagi, PR, em setembro de 1988. Dados de crescimento e de formas da árvore foram obtidos aos cinco anos de idade. A produtividade volumétrica média obtida foi de 0,091 m³ por árvore. Para estabelecer um pomar de sementes por mudas, a seleção (no bloco) de 190 árvores (95 por procedência) com os maiores diâmetros na altura do peito (DAP) permite aumentos na produtividade volumétrica de 0,104 m³, 0,106 m³ e 0,106 m³ por árvore, na seleção individual, combinada e índice multiefeito, respectivamente. Em pomar de sementes clonal, a seleção (no experimento) de 30 árvores (15 por procedência) com o maior ganho genético em DAP, pode atingir incrementos na produtividade volumétrica de 0,112 m³, 0,113 m³ e 0,114 m³, por árvore, na seleção individual, combinada e índice multiefeito, respectivamente.
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Although several approaches have been attempted, the estimation of recombination frequencies in natural populations ofbacteria remains challenging. Previous studies have demonstrated awide variety of situations among bacterial species, ranging from theclonal diversification of Salmonella or Escherichia coli, which aremainly due to mutation, to the frequent recombination found inNeisseria gonorrhoeae or Helicobacter pylori. Most of the populationstudies done with bacterial species suggest that recombination occursin nature but that it is infrequent compared to mutation. Consequently,bacterial populations consist largely of independent clonal lineages.Our research suggests little or null influence of recombination in thegenetic structure of "Aeromonas hydrophila Species Complex", despite the presence of some strains with recombinant gene fragments.
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Background: Arbuscular mycorrhizal fungi (AMF) are important symbionts of most plant species, promoting plant diversity and productivity. This symbiosis is thought to have contributed to the early colonisation of land by plants. Morphological stasis over 400 million years and the lack of an observed sexual stage in any member of the phylum Glomeromycota led to the controversial suggestion of AMF being ancients asexuals. Evidence for recombination in AMF is contradictory. Results: We addressed the question of recombination in the AMF Glomus intraradices by sequencing 11 polymorphic nuclear loci in 40 morphologically identical isolates from one field. Phylogenetic relationships among genotypes showed a reticulate network pattern providing a rationale to test for recombination. Five statistical tests predicted multiple recombinant regions in the genome of a core set of isolates. In contrast, five clonal lineages had fixed a large number of differences. Conclusion: Our data show that AMF from one field have undergone recombination but that clonal lineages coexist. This finding has important consequences for understanding AMF evolution, co-evolution of AMF and plants and highlights the potential for commercially introduced AMF inoculum recombining with existing local populations. Finally, our results reconcile seemingly contradictory studies on whether AMF are clonal or form recombining populations.
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Gene transfer-based therapeutic approaches have greatly benefited from the ability of some viral vectors to efficiently integrate within the cell genome and ensure persistent transmission of newly acquired transgenes to the target cell progeny. However, integration of provirus has been associated with epigenetic repercussions that may influence the expression of both the transgene and cellular genes close to vector integration loci. The exploitation of genetic insulator elements may overcome both issues through their ability to act as barriers that limit transgene silencing and/or as enhancer-blockers preventing the activation of endogenous genes by the vector enhancer. We established quantitative plasmid-based assay systems to screen enhancer-blocker and barrier genetic elements. Short synthetic insulators that bind to nuclear factor-I protein family transcription factors were identified to exert both enhancer-blocker and barrier functions, and were compared to binding sites for the insulator protein CTCF (CCCTC-binding factor). Gamma-retroviral vectors enclosing these insulator elements were produced at titers similar to their non-insulated counterparts and proved to be less genotoxic in an in vitro immortalization assay, yielding lower activation of Evi1 oncogene expression and reduced clonal expansion of bone marrow cells.
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Rapid rebound of plasma viremia in patients after interruption of long-term combination antiretroviral therapy (cART) suggests persistence of low-level replicating cells or rapid reactivation of latently infected cells. To further characterize rebounding virus, we performed extensive longitudinal clonal evolutionary studies of HIV env C2-V3-C3 regions and exploited the temporal relationships of rebounding plasma viruses with regard to pretreatment sequences in 20 chronically HIV-1-infected patients having undergone multiple 2-week structured treatment interruptions (STI). Rebounding virus during the short STI was homogeneous, suggesting mono- or oligoclonal origin during reactivation. No evidence for a temporal structure of rebounding virus in regard to pretreatment sequences was found. Furthermore, expansion of distinct lineages at different STI cycles emerged. Together, these findings imply stochastic reactivation of different clones from long-lived latently infected cells rather than expansion of viral populations replicating at low levels. After treatment was stopped, diversity increased steadily, but pretreatment diversity was, on average, achieved only >2.5 years after the start of STI when marked divergence from preexisting quasispecies also emerged. In summary, our results argue against persistence of ongoing low-level replication in patients on suppressive cART. Furthermore, a prolonged delay in restoration of pretreatment viral diversity after treatment interruption demonstrates a surprisingly sustained evolutionary bottleneck induced by punctuated antiretroviral therapy.
Correlações inter e intragerações e herdabilidade de cor de chips, matéria seca e produção em batata
Resumo:
Os objetivos deste trabalho foram determinar correlações inter e intragerações clonais, estimar herdabilidade quanto à cor de chips, teor de matéria seca e produção de batata, e suas implicações na seleção. Duzentos e cinqüenta clones de dez famílias foram escolhidos aleatoriamente de uma população de primeira geração clonal, destinada ao processamento de batatas chips, do programa de melhoramento genético de batata da Embrapa-Centro de Pesquisa Agropecuária de Clima Temperado. Os clones foram avaliados em segunda (G2), terceira (G3) e quarta (G4) gerações, respectivamente, no outono e primavera de 1999, e outono de 2000, em Pelotas, RS. Os coeficientes de correlação entre gerações e as estimativas de herdabilidade dentro das gerações clonais foram baixas em relação à cor de chips, baixas a moderadas quanto à matéria seca e incrementais com as gerações nos componentes de produção. Os coeficientes de correlação entre as características de qualidade e os componentes de produção dentro de cada geração foram baixos e, na maioria, não-significativos. As estimativas de herdabilidade dos dados conjuntos da G3 e G4 foram moderada, moderadamente alta e alta, respectivamente, em relação à cor de chips, teor de matéria seca e produção.
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Staphylococcus aureus can colonize and infect both humans and animals, but isolates from both hosts tend to belong to different lineages. Our recent finding of bovine-adapted S. aureus showing close genetic relationship to the human S. aureus clonal complex 8 (CC8) allowed us to examine the genetic basis of host adaptation in this particular CC. Using total chromosome microarrays, we compared the genetic makeup of 14 CC8 isolates obtained from cows suffering subclinical mastitis, with nine CC8 isolates from colonized or infected human patients, and nine S. aureus isolates belonging to typical bovine CCs. CC8 isolates were found to segregate in a unique group, different from the typical bovine CCs. Within this CC8 group, human and bovine isolates further segregated into three subgroups, among which two contained a mix of human and bovine isolates, and one contained only bovine isolates. This distribution into specific clusters and subclusters reflected major differences in the S. aureus content of mobile genetic elements (MGEs). Indeed, while the mixed human-bovine clusters carried commonly human-associated β-hemolysin converting prophages, the bovine-only isolates were devoid of such prophages but harbored an additional new non-mec staphylococcal cassette chromosome (SCC) unique to bovine CC8 isolates. This composite cassette carried a gene coding for a new LPXTG-surface protein sharing homologies with a protein found in the environmental bacterium Geobacillus thermoglucosidans. Thus, in contrast to human CC8 isolates, the bovine-only CC8 group was associated with the combined loss of β-hemolysin converting prophages and gain of a new SCC probably acquired in the animal environment. Remaining questions are whether the new LPXTG-protein plays a role in bovine colonization or infection, and whether the new SCC could further acquire antibiotic-resistance genes and carry them back to human.
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Anergic T cells display a marked decrease in their ability to produce IL-2 and to proliferate in the presence of an appropriate antigenic signal. Two nonmutually exclusive classes of models have been proposed to explain the persistence of T cell anergy in vivo. While some reports indicate that anergic T cells have intrinsic defects in signaling pathways or transcriptional activities, other studies suggest that anergy is maintained by environmental "suppressor" factors such as cytokines or Abs. To distinguish between these conflicting hypotheses, we employed the well-characterized bacterial superantigen model system to evaluate in vivo the ability of a trace population of adoptively transferred naive or anergized T cells to proliferate in a naive vs anergic environment upon subsequent challenge. Our data clearly demonstrate that bacterial superantigen-induced T cell anergy is cell autonomous and independent of environmental factors.
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The objectives of this work were to estimate the genetic and phenotypic parameters and to predict the genetic and genotypic values of the selection candidates obtained from intraspecific crosses in Panicum maximum as well as the performance of the hybrid progeny of the existing and projected crosses. Seventy-nine intraspecific hybrids obtained from artificial crosses among five apomictic and three sexual autotetraploid individuals were evaluated in a clonal test with two replications and ten plants per plot. Green matter yield, total and leaf dry matter yields and leaf percentage were evaluated in five cuts per year during three years. Genetic parameters were estimated and breeding and genotypic values were predicted using the restricted maximum likelihood/best linear unbiased prediction procedure (REML/BLUP). The dominant genetic variance was estimated by adjusting the effect of full-sib families. Low magnitude individual narrow sense heritabilities (0.02-0.05), individual broad sense heritabilities (0.14-0.20) and repeatability measured on an individual basis (0.15-0.21) were obtained. Dominance effects for all evaluated characteristics indicated that breeding strategies that explore heterosis must be adopted. Less than 5% increase in the parameter repeatability was obtained for a three-year evaluation period and may be the criterion to determine the maximum number of years of evaluation to be adopted, without compromising gain per cycle of selection. The identification of hybrid candidates for future cultivars and of those that can be incorporated into the breeding program was based on the genotypic and breeding values, respectively. The prediction of the performance of the hybrid progeny, based on the breeding values of the progenitors, permitted the identification of the best crosses and indicated the best parents to use in crosses.
Resumo:
O objetivo deste trabalho foi avaliar a eficiência da enxertia in vitro na propagação de dois clones híbridos de Eucalyptus urophylla e E. grandis. Foram utilizados porta-enxertos juvenis obtidos de sementes de E. grandis e E. urophylla germinadas in vitro. As plantas enxertadas apresentaram pegamento de até 93% aos 50 dias de idade para as combinações de enxerto e porta-enxerto. Quanto ao crescimento em altura, verificaram-se melhores resultados em relação ao porta-enxerto E. urophylla. A análise histológica das plantas enxertadas comprovou a eficiência do processo de cicatrização do calo formado na região de conexão, seguida da reconstituição vascular.
Resumo:
Mouse NK cells express MHC class I-specific inhibitory Ly49 receptors. Since these receptors display distinct ligand specificities and are clonally distributed, their expression generates a diverse NK cell receptor repertoire specific for MHC class I molecules. We have previously found that the Dd (or Dk)-specific Ly49A receptor is usually expressed from a single allele. However, a small fraction of short-term NK cell clones expressed both Ly49A alleles, suggesting that the two Ly49A alleles are independently and randomly expressed. Here we show that the genes for two additional Ly49 receptors (Ly49C and Ly49G2) are also expressed in a (predominantly) mono-allelic fashion. Since single NK cells can co-express multiple Ly49 receptors, we also investigated whether mono-allelic expression from within the tightly linked Ly49 gene cluster is coordinate or independent. Our clonal analysis suggests that the expression of alleles of distinct Ly49 genes is not coordinate. Thus Ly49 alleles are apparently independently and randomly chosen for stable expression, a process that directly restricts the number of Ly49 receptors expressed per single NK cell. We propose that the Ly49 receptor repertoire specific for MHC class I is generated by an allele-specific, stochastic gene expression process that acts on the entire Ly49 gene cluster.