Genome Sequence of the Pea Aphid Acyrthosiphon pisum

Aphids are important agricultural pests and also biological models for studies of insect-plant interactions, symbiosis, virus vectoring, and the developmental causes of extreme phenotypic plasticity. Here we present the 464 Mb draft genome assembly of the pea aphid Acyrthosiphon pisum. This first published whole genome sequence of a basal hemimetabolous insect provides an outgroup to the multiple published genomes of holometabolous insects. Pea aphids are host-plant specialists, they can reproduce both sexually and asexually, and they have coevolved with an obligate bacterial symbiont. Here we highlight findings from whole genome analysis that may be related to these unusual biological features. These findings include discovery of extensive gene duplication in more than 2000 gene families as well as loss of evolutionarily conserved genes. Gene family expansions relative to other published genomes include genes involved in chromatin modification, miRNA synthesis, and sugar transport. Gene losses include genes central to the IMD immune pathway, selenoprotein utilization, purine salvage, and the entire urea cycle. The pea aphid genome reveals that only a limited number of genes have been acquired from bacteria; thus the reduced gene count of Buchnera does not reflect gene transfer to the host genome. The inventory of metabolic genes in the pea aphid genome suggests that there is extensive metabolite exchange between the aphid and Buchnera, including sharing of amino acid biosynthesis between the aphid and Buchnera. The pea aphid genome provides a foundation for post-genomic studies of fundamental biological questions and applied agricultural problems

Homoplastic microinversions and the avian tree of life

Background: Microinversions are cytologically undetectable inversions of DNA sequences that accumulate slowly in genomes. Like many other rare genomic changes (RGCs), microinversions are thought to be virtually homoplasyfree evolutionary characters, suggesting that they may be very useful for difficult phylogenetic problems such as the avian tree of life. However, few detailed surveys of these genomic rearrangements have been conducted, making it difficult to assess this hypothesis or understand the impact of microinversions upon genome evolution. Results: We surveyed non-coding sequence data from a recent avian phylogenetic study and found substantially more microinversions than expected based upon prior information about vertebrate inversion rates, although this is likely due to underestimation of these rates in previous studies. Most microinversions were lineage-specific or united well-accepted groups. However, some homoplastic microinversions were evident among the informative characters. Hemiplasy, which reflects differences between gene trees and the species tree, did not explain the observed homoplasy. Two specific loci were microinversion hotspots, with high numbers of inversions that included both the homoplastic as well as some overlapping microinversions. Neither stem-loop structures nor detectable sequence motifs were associated with microinversions in the hotspots. Conclusions: Microinversions can provide valuable phylogenetic information, although power analysis indicate

Naturalistas viajantes Travel naturalists

O naturalista viajante é aquele que nos séculos XVIII e XIX dedicava-se ao estudo da história natural, ou seja, da natureza, compreendendo os astros, o ar, os animais, os vegetais e minerais da superfície e da profundidade da terra. Enquanto os naturalistas-viajantes do período colonial eram exclusivamente súditos da Coroa portuguesa, encarregados de revelar as riquezas e utilidade dos recursos naturais, os que percorreram o Brasil no século XIX, após 1808, vinham de diversas regiões da Europa e estavam empenhados na observação e classificação dos homens e de suas línguas considerados entre as espécies da natureza. Ligados à nobreza ou a sociedades científicas, percorriam o solo brasileiro num esforço conjunto e planejado de revelar, colecionar e classificar os reinos naturais da América.<br>During the XVIIIth and XIXth centuries, travelers that studied natural history were referred to as travel naturalists. Nature included the stars and planets, the atmosphere, flora and fauna, and surface and underground minerals. While in colonial times they were limited to citizens of Portugal who were instructed to discover natural resources and their uses, those who traveled through Brazil after 1808 came from different regions of Europe and were concerned with observing and classifying people and natural specimens found along the way. Sponsored by either noblemen or scientific societies, they traveled around Brazil in a combined endeavor of discovering, collecting, and classifying natural specimens on the American continent

The dynamics of a frictionally-dominated Amazonian estuary

The hydrodynamics, morphology and sedimentology of the Taperaçu estuary were investigated. This is one of several estuaries located within the largest mangrove fringe in the world, bordering the Amazon region, subject to a macrotidal regime and regionally atypical negligible fresh water supply. The results reveal widespread sand banks that occupy the central portion of the estuarine cross-section. Well-sorted very fine sandy sediments of marine origin prevail. Shorter flood phases, with substantially higher current velocities, were observed in the upper sector of Taperaçu, as expected for a shallow, friction-dominated estuary. However, ebb domination can be expected for estuaries with large associated mangrove areas and substantial estuarine infilling, both of which situations occur on the Taperaçu. The tidal asymmetry favoring flood currents could be the result of the absence of an effective fluvial discharge. Furthermore, it was observed that the Taperaçu is connected by tidal creeks to the neighboring Caeté estuary, allowing a stronger flux during the flood and intensifying the higher flood currents. As a whole, the results have shown a complex interaction of morphological aspects (friction, fluvial drainage, connections with neighbor estuaries, infilling and large storage area) in determining hydrodynamic patterns, thus improving the understanding of Amazon estuaries.<br>A hidrodinâmica, morfologia e sedimentologia do estuário do Taperaçu foram investigadas. Este é um entre vários estuários do litoral amazônico que integram a maior extensão contínua de manguezais do mundo, apresentando uma descarga de água doce muito reduzida, atípica para a região. Os resultados revelam grandes bancos arenosos que ocupam em grande parte a porção central do estuário. Areias muito finas e bem selecionadas de origem marinha prevalecem. Fases de enchente mais curtas, com velocidades de corrente substancialmente mais altas, são observadas na porção superior do estuário, como esperado para um estuário raso e dominado por fricção. Por outro lado, uma vazante mais intensa poderia ocorrer como resultado de grandes áreas de manguezais associadas e intenso preenchimento estuarino, sendo que ambas as condições são observadas no Taperaçu. Neste caso, a prevalência da enchente parece estar associada à ausência de uma descarga fluvial efetiva. Além disso, alguns canais de maré conectam o Taperaçu com seu vizinho estuário do Caeté, o que contribuiria para o domínio de enchente. Como um todo, os resultados demonstram uma complexa interação de aspectos de configuração (fricção, drenagem fluvial, conexões com estuários vizinhos, preenchimento e grandes áreas intermareais) na determinação dos padrões hidrodinâmicos, contribuindo para o entendimento dos estuários da região amazônica