Balanço ex-ante dos gases do efeito estufa nos programas de desenvolvimento na agricultura e em florestas

EX-ACT (Ex-Ante Carbon-balance Tool, ferramenta para o balanço ex-ante de Carbono) é desenvolvida pela Organização das Nações Unidas para Agricultura e Alimentação (FAO). Tem como finalidade de fornecer estimativas ex-ante do impacto de atenuação na agricultura e nos projetos de desenvolvimento florestal, estimando o saldo líquido das emissões dos gases do efeito estufa (GEE) e do seqüestro de carbono (C). EX-ACT é um sistema de contabilidade que considera o uso da terra, medindo estoques de C, mudanças do estoque por unidade de área, e emissões de CH4 e N2O expressos em CO2-eq por hectare e por ano. O resultado principal da ferramenta é uma estimativa do balanço de CO2-eq associados à adoção de opções de melhoria do manejo da terra, em comparação com um cenário chamado de "business as usual". EX-ACT foi desenvolvida usando principalmente as recomendações de 1996 para estabelecer os inventários nacionais de GEE (Guidelines for National Greenhouse Gas Inventories IPCC, 2006) complementada por outras metodologias existentes e coeficientes padrão especificos quando disponíveis. Os valores padrão para as opções de mitigação no setor agrícola são na sua maioria provenientes do 4º Relatório de Avaliação do IPCC (2007). Assim, EX-ACT estima o balanço de C dos novos programas de investimentos, garantindo um método adequado e disponível para financiadores e agentes de planejamento, projetistas, e governantes para os setores da agricultura e da silvicultura nos países em desenvolvimento. A ferramenta também pode ajudar a identificar os impactos de atenuação de opções possíveis em vários projetos de investimento, e assim fornecer um critério adicional para escolhê-las como parte dos projetos.EX-ACT (EX-Ante Carbon-balance Tool) is a tool developed by the Food and Agriculture Organization of the United Nations (FAO). It provides ex-ante measurements of the mitigation impact of agriculture and forestry development projects, estimating net C balance from GHG emissions and Carbon (C) sequestration. EX-ACT is a land-based accounting system, measuring C stocks, stock changes per unit of land, and CH4 and N2O emissions expressed in t CO2-eq per hectare and year. The main output of the tool is an estimation of the C-balance associated with the adoption of improved land management options, as compared with a "business as usual" scenario. EX-ACT has been developed using primarily the IPCC 2006 Guidelines for National Greenhouse Gas Inventories, complemented by other existing methodologies and reviews of default coefficients. Default values for mitigation options in the agriculture sector are mostly from the 4th Assessment Report of IPCC (2007). Thus, EX-ACT allows for the carbonbalance appraisal of new investment programmes by ensuring an appropriate method available for donors and planning officers, project designers, and decision makers within agriculture and forestry sectors in developing countries. The tool can also help to identify the mitigation impacts of various investment project options, and thus provide an additional criterion for consideration in project selection

aes, the gene encoding the esterase B in Escherichia coli, is a powerful phylogenetic marker of the species

<p>Abstract</p> <p>Background</p> <p>Previous studies have established a correlation between electrophoretic polymorphism of esterase B, and virulence and phylogeny of <it>Escherichia coli</it>. Strains belonging to the phylogenetic group B2 are more frequently implicated in extraintestinal infections and include esterase B₂variants, whereas phylogenetic groups A, B1 and D contain less virulent strains and include esterase B₁variants. We investigated esterase B as a marker of phylogeny and/or virulence, in a thorough analysis of the esterase B-encoding gene.</p> <p>Results</p> <p>We identified the gene encoding esterase B as the acetyl-esterase gene (<it>aes</it>) using gene disruption. The analysis of <it>aes </it>nucleotide sequences in a panel of 78 reference strains, including the <it>E. coli </it>reference (ECOR) strains, demonstrated that the gene is under purifying selection. The phylogenetic tree reconstructed from <it>aes </it>sequences showed a strong correlation with the species phylogenetic history, based on multi-locus sequence typing using six housekeeping genes. The unambiguous distinction between variants B₁and B₂by electrophoresis was consistent with Aes amino-acid sequence analysis and protein modelling, which showed that substituted amino acids in the two esterase B variants occurred mostly at different sites on the protein surface. Studies in an experimental mouse model of septicaemia using mutant strains did not reveal a direct link between <it>aes </it>and extraintestinal virulence. Moreover, we did not find any genes in the chromosomal region of <it>aes </it>to be associated with virulence.</p> <p>Conclusion</p> <p>Our findings suggest that <it>aes </it>does not play a direct role in the virulence of <it>E. coli </it>extraintestinal infection. However, this gene acts as a powerful marker of phylogeny, illustrating the extensive divergence of B2 phylogenetic group strains from the rest of the species.</p

A novel class of CoA-transferase involved in short-chain fatty acid metabolism in butyrate-producing human colonic bacteria

Peer reviewedPublisher PD

Organised Genome Dynamics in the Escherichia coli Species Results in Highly Diverse Adaptive Paths

The Escherichia coli species represents one of the best-studied model organisms, but also encompasses a variety of commensal and pathogenic strains that diversify by high rates of genetic change. We uniformly (re-) annotated the genomes of 20 commensal and pathogenic E. coli strains and one strain of E. fergusonii (the closest E. coli related species), including seven that we sequenced to completion. Within the ∼18,000 families of orthologous genes, we found ∼2,000 common to all strains. Although recombination rates are much higher than mutation rates, we show, both theoretically and using phylogenetic inference, that this does not obscure the phylogenetic signal, which places the B2 phylogenetic group and one group D strain at the basal position. Based on this phylogeny, we inferred past evolutionary events of gain and loss of genes, identifying functional classes under opposite selection pressures. We found an important adaptive role for metabolism diversification within group B2 and Shigella strains, but identified few or no extraintestinal virulence-specific genes, which could render difficult the development of a vaccine against extraintestinal infections. Genome flux in E. coli is confined to a small number of conserved positions in the chromosome, which most often are not associated with integrases or tRNA genes. Core genes flanking some of these regions show higher rates of recombination, suggesting that a gene, once acquired by a strain, spreads within the species by homologous recombination at the flanking genes. Finally, the genome's long-scale structure of recombination indicates lower recombination rates, but not higher mutation rates, at the terminus of replication. The ensuing effect of background selection and biased gene conversion may thus explain why this region is A+T-rich and shows high sequence divergence but low sequence polymorphism. Overall, despite a very high gene flow, genes co-exist in an organised genome

Altered Immune Responses in Rhesus Macaques Co-Infected with SIV and Plasmodium cynomolgi: An Animal Model for Coincident AIDS and Relapsing Malaria

BACKGROUND:Dual epidemics of the malaria parasite Plasmodium and HIV-1 in sub-Saharan Africa and Asia present a significant risk for co-infection in these overlapping endemic regions. Recent studies of HIV/Plasmodium falciparum co-infection have reported significant interactions of these pathogens, including more rapid CD4+ T cell loss, increased viral load, increased immunosuppression, and increased episodes of clinical malaria. Here, we describe a novel rhesus macaque model for co-infection that supports and expands upon findings in human co-infection studies and can be used to identify interactions between these two pathogens. METHODOLOGY/PRINCIPAL FINDINGS:Five rhesus macaques were infected with P. cynomolgi and, following three parasite relapses, with SIV. Compared to macaques infected with SIV alone, co-infected animals had, as a group, decreased survival time and more rapid declines in markers for SIV progression, including peripheral CD4+ T cells and CD4+/CD8+ T cell ratios. The naïve CD4+ T cell pool of the co-infected animals was depleted more rapidly than animals infected with SIV alone. The co-infected animals also failed to generate proliferative responses to parasitemia by CD4+ and CD8+ T cells as well as B cells while also having a less robust anti-parasite and altered anti-SIV antibody response. CONCLUSIONS/SIGNIFICANCE:These data suggest that infection with both SIV and Plasmodium enhances SIV-induced disease progression and impairs the anti-Plasmodium immune response. These data support findings in HIV/Plasmodium co-infection studies. This animal model can be used to further define impacts of lentivirus and Plasmodium co-infection and guide public health and therapeutic interventions

Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity.

Global dispersal and increasing frequency of the SARS-CoV-2 spike protein variant D614G are suggestive of a selective advantage but may also be due to a random founder effect. We investigate the hypothesis for positive selection of spike D614G in the United Kingdom using more than 25,000 whole genome SARS-CoV-2 sequences. Despite the availability of a large dataset, well represented by both spike 614 variants, not all approaches showed a conclusive signal of positive selection. Population genetic analysis indicates that 614G increases in frequency relative to 614D in a manner consistent with a selective advantage. We do not find any indication that patients infected with the spike 614G variant have higher COVID-19 mortality or clinical severity, but 614G is associated with higher viral load and younger age of patients. Significant differences in growth and size of 614G phylogenetic clusters indicate a need for continued study of this variant