Phylogenomic analysis of vertebrate thrombospondins reveals fish-specific paralogues, ancestral gene relationships and a tetrapod innovation

BACKGROUND: Thrombospondins (TSPs) are evolutionarily-conserved, extracellular, calcium-binding glycoproteins with important roles in cell-extracellular matrix interactions, angiogenesis, synaptogenesis and connective tissue organisation. Five TSPs, designated TSP-1 through TSP-5, are encoded in the human genome. All but one have known roles in acquired or inherited human diseases. To further understand the roles of TSPs in human physiology and pathology, it would be advantageous to extend the repertoire of relevant vertebrate models. In general the zebrafish is proving an excellent model organism for vertebrate biology, therefore we set out to evaluate the status of TSPs in zebrafish and two species of pufferfish. RESULTS: We identified by bioinformatics that three fish species encode larger numbers of TSPs than vertebrates, yet all these sequences group as homologues of TSP-1 to -4. By phylogenomic analysis of neighboring genes, we uncovered that, in fish, a TSP-4-like sequence is encoded from the gene corresponding to the tetrapod TSP-5 gene. Thus, all TSP genes show conservation of synteny between fish and tetrapods. In the human genome, the TSP-1, TSP-3, TSP-4 and TSP-5 genes lie within paralogous regions that provide insight into the ancestral genomic context of vertebrate TSPs. CONCLUSION: A new model for TSP evolution in vertebrates is presented. The TSP-5 protein sequence has evolved rapidly from a TSP-4-like sequence as an innovation in the tetrapod lineage. TSP biology in fish is complicated by the presence of additional lineage- and species-specific TSP paralogues. These novel results give deeper insight into the evolution of TSPs in vertebrates and open new directions for understanding the physiological and pathological roles of TSP-4 and TSP-5 in humans

The negative influences of the new brazilian forest code on the conservation of riparian forests

More than one million hectares of riparian forests were degraded or altered in Mato Grosso State (Brazil) up to 2009. The aim of the research is to set a comparative scenario to show differences in the quantification of environmental liabilities in riparian forest areas resulting from the change in native vegetation protection rules due to the transition between Laws 4771/65 and 12651/2012. Data collection took place in a marginal stretch of Vermelho River in Rondonópolis County, Mato Grosso State. The following data set was taken into consideration: aerial images derived from unmanned aerial vehicle, Rapid Eye satellite images and orbital images hosted at Google Earth. The spatial resolution of those images was compared. The aerial photos composed a mosaic that was photo-interpreted to generate land use and occupation classes. The riparian forest areas of a rural property were used as parameter, and their environmental situation was compared in 05 meter and 100 meter strips. Thus, by taking into consideration the current rules, 23,501 m2 of area ceased to be an environmental liability within the riparian forest and became a consolidated rural area. According to the previous Forest Code, in a different scenario, that is, in a set of rural properties, the public authority would receive USD 68,600.00 in fines. The new Brazilian Forestry Code of 2012, which replaces the previous one made in 1965, exempts those responsible for rural property from regenerating previously deforested native vegetation — an obligation established by older Forest Code. We have shown that the new Forest Code has diminished the legal responsibility of the rural owners in relation to the maintenance of forest fragments in their properties

The genetics of ray pattern variation in Caenorhabditis briggsae

BACKGROUND: How does intraspecific variation relate to macroevolutionary change in morphology? This question can be addressed in species in which derived characters are present but not fixed. In rhabditid nematodes, the arrangement of the nine bilateral pairs of peripheral sense organs (rays) in tails of males is often the most highly divergent character between species. The development of ray pattern involves inputs from hometic gene expression patterns, TGFβ signalling, Wnt signalling, and other genetic pathways. In Caenorhabditis briggsae, strain-specific variation in ray pattern has provided an entrée into the evolution of ray pattern. Some strains were fixed for a derived pattern. Other strains were more plastic and exhibited derived and ancestral patterns at equal frequencies. RESULTS: Recombinant inbred lines (RILs) constructed from crosses between the variant C. briggsae AF16 and HK104 strains exhibited a wide range of phenotypes including some that were more extreme than either parental strain. Transgressive segregation was significantly associated with allelic variation in the C. briggsae homolog of abdominal B, Cb-egl-5. At least two genes that affected different elements of ray pattern, ray position and ray fusion, were linked to a second gene, mip-1. Consistent with this, the segregation of ray position and ray fusion phenotypes were only partially correlated in the RILs. CONCLUSIONS: The evolution of ray pattern has involved allelic variation at multiple loci. Some of these loci impact the specification of ray identities and simultaneously affect multiple ray pattern elements. Others impact individual characters and are not constrained by covariance with other ray pattern elements. Among the genetic pathways that may be involved in ray pattern evolution is specification of anteroposterior positional information by homeotic genes

A unified model for holistic power usage in cloud datacenter servers

Cloud datacenters are compute facilities formed by hundreds and thousands of heterogeneous servers requiring significant power requirements to operate effectively. Servers are composed by multiple interacting sub-systems including applications, microelectronic processors, and cooling which reflect their respective power profiles via different parameters. What is presently unknown is how to accurately model the holistic power usage of the entire server when including all these sub-systems together. This becomes increasingly challenging when considering diverse utilization patterns, server hardware characteristics, air and liquid cooling techniques, and importantly quantifying the non-electrical energy cost imposed by cooling operation. Such a challenge arises due to the need for multi-disciplinary expertise required to study server operation holistically. This work provides a unified model for capturing holistic power usage within Cloud datacenter servers. Constructed through controlled laboratory experiments, the model captures the relationship of server power usage between software, hardware, and cooling agnostic of architecture and cooling type (air and liquid). An exciting prospect is the ability to quantify the amount of non-electrical power consumed through cooling, allowing for more realistic and accurate server power profiles. This work represents the first empirically supported analysis and modeling of holistic power usage for Cloud datacenter servers, and bridges a significant gap between computer science and mechanical engineering research. Model validation through experiments demonstrates an average standard error of 3% for server power usage within both air and liquid cooled environments

Iniciativas e experiências em Recursos Abertos Educacionais (REA) no ensino superior

[PT]—Em uma sociedade globalizada, interconectada, em rede, onde a informação e o conhecimento são um diferencial, fazse necessário que o direito à educação com qualidade seja universalizado. Os Recursos Educacionais Abertos (REA) são materiais dos alunos, professores e pesquisadores na WEB, amparados por licenças, que auxiliam na criação, uso, reuso, remixagem, disseminação e compartilhamento do conhecimento, auxiliando os processos de ensino e aprendizagem. O objetivo deste é conhecer de que maneira autores têm tratado a educação aberta na atualidade – como um movimento coletivo, de pessoas e instituições públicas e privadas - em seus projetos, programas e materiais educacionais e na promoção de ações voltadas à construção de conhecimento - que tornem a educação mais acessível para todos. É relevante refletir, discutir e trazer à luz novos conteúdos que demonstrem a variação que existe sobre a utilização conceitual do REA, tanto em terminologias como nas práticas, principalmente no âmbito do ensino superior, transformando dessa maneira às concepções de tempo e espaço educacionais

Active Disk Building in a local HI-Massive LIRG: The Synergy between Gas, Dust, and Star Formation

HIZOA J0836-43 is the most HI-massive (M_HI = 7.5x10^10 Msun) galaxy detected in the HIPASS volume and lies optically hidden behind the Milky Way. Markedly different from other extreme HI disks in the local universe, it is a luminous infrared galaxy (LIRG) with an actively star forming disk (>50 kpc), central to its ~ 130 kpc gas disk, with a total star formation rate (SFR) of ~20.5 Msun yr^{-1}. Spitzer spectroscopy reveals an unusual combination of powerful polycyclic aromatic hydrocarbon (PAH) emission coupled to a relatively weak warm dust continuum, suggesting photodissociation region (PDR)-dominated emission. Compared to a typical LIRG with similar total infrared luminosity (L_TIR=10^11 Lsun), the PAHs in HIZOA J0836-43 are more than twice as strong, whereas the warm dust continuum (lambda > 20micron) is best fit by a star forming galaxy with L_TIR=10^10 Lsun. Mopra CO observations suggest an extended molecular gas component (H_2 + He > 3.7x10^9 Msun) and a lower limit of ~ 64% for the gas mass fraction; this is above average compared to local disk systems, but similar to that of z~1.5 BzK galaxies (~57%). However, the star formation efficiency (SFE = L_IR/L'_CO) for HIZOA J0836-43 of 140 Lsun (K km s^{-1} pc^2)^{-1} is similar to that of local spirals and other disk galaxies at high redshift, in strong contrast to the increased SFE seen in merging and strongly interacting systems. HIZOA J0836-43 is actively forming stars and building a massive stellar disk. Its evolutionary phase of star formation (M_stellar, SFR, gas fraction) compared to more distant systems suggests that it would be considered typical at redshift z~1. This galaxy provides a rare opportunity in the nearby universe for studying (at z~0.036) how disks were building and galaxies evolving at z~1, when similarly large gas fractions were likely more common.Comment: Accepted for publication in The Astrophysical Journal. 16 pages, 8 figure

Thermal hadron production in high energy collisions

It is shown that hadron abundances in high energy e+e-, pp and p{\bar p} collisions, calculated by assuming that particles originate in hadron gas fireballs at thermal and partial chemical equilibrium, are in very good agreement with the data. The freeze-out temperature of the hadron gas fireballs turns out to be nearly constant over a large center of mass energy range and not dependent on the initial colliding system. The only deviation from chemical equilibrium resides in the incomplete strangeness phase space saturation. Preliminary results of an analysis of hadron abundances in S+S and S+Ag heavy ion collisions are presented.Comment: 10 pages, 1 .eps figure, talk given at the Strangeness and Quark Matter 97 conferenc