Structures of the noncovalent complexes of human and bovine prothrombin fragment 2 with human PPACK-thrombin

Both human and bovine prothrombin fragment 2 (the second kringle) have been cocrystallized separately with human PPACK (D-Phe-Pro-Arg)-thrombin, and the structures of these noncovalent complexes have been determined and refined (R = 0.155 and 0.157, respectively) at 3.3-Å resolution using X-ray crystallographic methods. The kringles interact with thrombin at a site that has previously been proposed to be the heparin binding region. The latter is a highly electropositive surface near the C-terminal helix of thrombin abundant in arginine and lysine residues. These form salt bridges with acidic side chains of kringle 2. Somewhat unexpectedly, the negative groups of the kringle correspond to an enlarged anionic center of the lysine binding site of lysine binding kringles such as plasminogens K1 and K4 and TPA K2. The anionic motif is DGDEE in prothrombin kringle 2. The corresponding cationic center of the lysine binding site region has an unfavorable Arg70Asp substitution, but Lys35 is conserved. However, the folding of fragment 2 is different from that of prothrombin kringle 1 and other kringles: the second outer loop possesses a distorted two-turn helix, and the hairpin β-turn of the second inner loop pivots at Val64 and Asp70 by 60°. Lys35 is located on a turn of the helix, which causes it to project into solvent space in the fragment 2-thrombin complex, thereby devastating any vestige of the cationic center of the lysine binding site. Since fragment 2 has not been reported to bind lysine, it most likely has a different inherent folding conformation for the second outer loop, as has also been observed to be the case with TPA K2 and the urokinase kringle. The movement of the Val64-Asp70 β-turn is most likely a conformational change accompanying complexation, which reveals a new heretofore unsuspected flexibility in kringles. The fragment 2-thrombin complex is only the second cassette module-catalytic domain structure to be determined for a multidomain blood protein and only the third domain-domain interaction to be described among such proteins, the others being factor Xa without a Gla domain and Ca2+ prothrombin fragment 1 with a Gla domain and a kringle. © 1993 American Chemical Society.

Multiplicity of Boardman strata and deformations of map germs

We define algebraically for each map germ f: Kn, 0→ Kp, 0 and for each Boardman symbol i = (il, . . ., ik) a number ci(f) which is script A sign-invariant. If f is finitely determined, this number is the generalization of the Milnor number of f when p = 1, the number of cusps of f when n = p = 2, or the number of cross caps when n = 2, p = 3. We study some properties of this number and prove that, in some particular cases, this number can be interpreted geometrically as the number of Σi points that appear in a generic deformation of f. In the last part, we compute this number in the case that the map germ is a projection and give some applications to catastrophe map germs.

Ecological interaction between Atta sexdens (Hymenoptera: Formicidae) and the vegetation of a mesophyll semideciduous forest fragment in Botucatu, SP, Brazil

Among 89 plants species growing in a subtropical dry forest fragment located in Botucatu, State of São Paulo, Brazil, 35 species were cut by Atta sexdens, representing 39.34% of the current plants existing in this area. A. sexdens L., 1758 (Hymenoptera: Formicidae) has a selective preference for the following species: Alchornea triplinervia, Faramea cyanea, Cariniana estrellensis and Casearea obliqua, with the first being the most cut species. The frequency and absolute densities of the plant families and species significantly influence the selection process. When comparing the absolute frequency regarding the 10 most cut plant species and the cutting frequency, significant data were obtained only for the euphorbiaceous A. triplinervia species, proving the preference of A. sexdens for this species in particular. These interactions are discussed based on ecological and management factors in agro-ecosystems.

Fluorescent amplified fragment length polymorphism (fAFLP) analyses and genetic diversity in Litopenaeus vannamei (Penaeidae)

The Pacific white shrimp, Litopenaeus vannamei (Penaeidae), represents about 95% of all Brazilian shrimp production. The Brazilian L. vannamei foundation broodstock was made up of specimens collected from different American Pacific sites, but little information was collected on the genetic structure of the broodstock. We used the fluorescence amplified fragment length polymorphism (fAFLP) method to study the genetic diversity of L. vannamei broodstock lines 03CMF1 and 03CBF1 originally produced by breeder-shrimps imported mainly from Panama and Ecuador, although wild individuals from other localities may also have been used in producing these two lines. Our results showed a total of 93 polymorphic bands ranging from 50 to 500 bp, the mean Nei's genetic diversity calculated for the total sample was 13.4% and identity and genetic distance analyses indicated high genetic homogeneity within and between both the broodstock lineages studied which suggests that they had similar genetic structure. These results may represent an important tool for the appropriate management of L. vannamei broodstocks. Copyright by the Brazilian Society of Genetics.

Genetic diversity in wild (Sus scrofa scrofa) and domestic (Sus scrofa domestica) pigs and their hybrids based on polymorphism of a fragment of the D-loop region in the mitochondrial DNA

We examined the variation in mitochondrial DNA by sequencing the D-loop region in wild and domestic (large-white breed) pigs, in hybrids between domestic and wild pigs, and in Monteiro pigs. A D-loop fragment of approximately 330 bp was amplified by PCR. Sequencing of DNA amplicons identified haplotypes previously described as European and Asian types. Monteiro pigs and wild pigs had European haplotypes and domestic pigs had both European and Asian haplotypes. ©FUNPEC-RP.

Use of space by frugivorous bats (Chiroptera: Phyllostomidae) in a restored Atlantic forest fragment in Brazil

We studied patterns in the use of space for foraging and roosting by two frugivorous bat species in a five-year-old restored Atlantic forest located in a fragmented landscape in southeastern Brazil. Ten individuals of Carollia perspicillata and eleven individuals of Artibeus lituratus were monitored through radio-telemetry in five sampling sessions. Each session lasted 3-8. days for each individual, with an average of 25.4 ± 10 locations for each C. perspicillata individual and 19 ± 4.4 for each A. lituratus individual. We described an average range of 124.4. ha and an average commuting distance of 1158.8. m for A. lituratus and an average range and commuting distance of 32. ha and 489. m, respectively, for C. perspicillata. We demonstrated a consistent pattern in habitat use and movements for both studied species, where they strictly used forests (restored or not) for day roosting, roosting in the foliage of trees located only in secondary forest remnants and restored areas, while restored areas were their main feeding habitat. We demonstrate that newly restored forests can be readily incorporated as foraging and roosting habitats by these species, and that C. perspicillata alters its roosting behavior in relation to preferred food availability. These results, when combined with data on the diet of the studied species, show consistent evidence of the potential that bats have to improve species diversity of anthropogenic plantings with their own natural seed dispersal. © 2012 Elsevier B.V.

Edge-interior differences in the species richness and abundance of drosophilids in a semideciduous forest fragment

Habitat fragmentation is the main cause of biodiversity loss, as remnant fragments are exposed to negative influences that include edge effects, prevention of migration, declines in effective population sizes, loss of genetic variability and invasion of exotic species. The Drosophilidae (Diptera), especially species of the genus Drosophila, which are highly sensitive to environmental variation, have been used as bioindicators. A twelve-month field study was conducted to evaluate the abundance and richness of drosophilids in an edge-interior transect in a fragment of semideciduous forest in São Paulo State, Brazil. One objective of the study was to evaluate the applied methodology with respect to its potential use in future studies addressing the monitoring and conservation of threatened areas. The species abundance along the transect showed a clear gradient, with species associated with disturbed environments, such as Drosophila simulans, Scaptodrosophila latifasciaeformis and Zaprionus indianus, being collected at the fragment edge and the species D. willistoni and D. mediostriata being found in the fragment's interior. Replacement of these species occurred at approximately 60 meters from the edge, which may be a reflection of edge effects on species abundance and richness because the species found within the habitat fragment are more sensitive to variations in temperature and humidity than those sampled near the edge. The results support the use of this methodology in studies on environmental impacts. © 2013 Penariol and Madi-Ravazzi; licensee Springer.

Checklist of social (polistinae) and solitary (eumeninae) wasps from a fragment of Cerrado campo Sujo in the State of Mato Grosso do sul

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Multiplicity and transverse momentum dependence of two- and four-particle correlations in pPb and PbPb collisions

Measurements of two- and four-particle angular correlations for charged particles emitted in pPb collisions are presented over a wide range in pseudorapidity and full azimuth. The data, corresponding to an integrated luminosity of approximately 31nb-1, were collected during the 2013 LHC pPb run at a nucleon-nucleon center-of-mass energy of 5.02 TeV by the CMS experiment. The results are compared to 2.76 TeV semi-peripheral PbPb collision data, collected during the 2011 PbPb run, covering a similar range of particle multiplicities. The observed correlations are characterized by the near-side (|δφ|≈0) associated pair yields and the azimuthal anisotropy Fourier harmonics (vn). The second-order (v2) and third-order (v3) anisotropy harmonics are extracted using the two-particle azimuthal correlation technique. A four-particle correlation method is also applied to obtain the value of v2 and further explore the multi-particle nature of the correlations. Both associated pair yields and anisotropy harmonics are studied as a function of particle multiplicity and transverse momentum. The associated pair yields, the four-particle v2, and the v3 become apparent at about the same multiplicity. A remarkable similarity in the v3 signal as a function of multiplicity is observed between the pPb and PbPb systems. Predictions based on the color glass condensate and hydrodynamic models are compared to the experimental results. © 2013 CERN.

Search for supersymmetry in hadronic final states with missing transverse energy using the variables αT and b-quark multiplicity in pp collisions at {Mathematical expression}

An inclusive search for supersymmetric processes that produce final states with jets and missing transverse energy is performed in pp collisions at a centre-of-mass energy of 8 TeV. The data sample corresponds to an integrated luminosity of 11.7 fb-1 collected by the CMS experiment at the LHC. In this search, a dimensionless kinematic variable, αT, is used to discriminate between events with genuine and misreconstructed missing transverse energy. The search is based on an examination of the number of reconstructed jets per event, the scalar sum of transverse energies of these jets, and the number of these jets identified as originating from bottom quarks. No significant excess of events over the standard model expectation is found. Exclusion limits are set in the parameter space of simplified models, with a special emphasis on both compressed-spectrum scenarios and direct or gluino-induced production of third-generation squarks. For the case of gluino-mediated squark production, gluino masses up to 950-1125 GeV are excluded depending on the assumed model. For the direct pair-production of squarks, masses up to 450 GeV are excluded for a single light first- or second-generation squark, increasing to 600 GeV for bottom squarks. © 2013 CERN for the benefit of the CMS collaboration.

Behavior and foraging technique of the Ingram's squirrel Guerlinguetus ingrami (Sciuridae: Rodentia) in an Araucaria moist forest fragment

This work describes the foraging techniques, body positions and behavior of free-ranging Ingram's squirrel Guerlinguetus ingrami Thomas, 1901 in a region of the Araucaria moist forest, in the Atlantic Forest of southern Brazil. The animals were observed using the all occurrence sampling method with the aid of binoculars and a digital camcorder. All behaviors were described in diagrams and an ethogram. We recorded five basic body positions, 24 behaviors, two food choices, and three feeding strategies utilized to open fruits of Syagrus romanzoffiana (Cham.), the main food source of Ingram's squirrels. We also observed a variance in the animals' stance, which is possibly influenced by predation risk, and discuss the causes of some behaviors.

Identification of blood meal sources of Lutzomyia longipalpis using polymerase chain reaction-restriction fragment length polymorphism analysis of the cytochrome B gene

An analysis of the dietary content of haematophagous insects can provide important information about the transmission networks of certain zoonoses. The present study evaluated the potential of polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis of the mitochondrial cytochrome B (cytb) gene to differentiate between vertebrate species that were identified as possible sources of sandfly meals. The complete cytb gene sequences of 11 vertebrate species available in the National Center for Biotechnology Information database were digested with Aci I, Alu I, Hae III and Rsa I restriction enzymes in silico using Restriction Mapper software. The cytb gene fragment (358 bp) was amplified from tissue samples of vertebrate species and the dietary contents of sandflies and digested with restriction enzymes. Vertebrate species presented a restriction fragment profile that differed from that of other species, with the exception of Canis familiaris and Cerdocyon thous. The 358 bp fragment was identified in 76 sandflies. Of these, 10 were evaluated using the restriction enzymes and the food sources were predicted for four: Homo sapiens (1), Bos taurus (1) and Equus caballus (2). Thus, the PCR-RFLP technique could be a potential method for identifying the food sources of arthropods. However, some points must be clarified regarding the applicability of the method, such as the extent of DNA degradation through intestinal digestion, the potential for multiple sources of blood meals and the need for greater knowledge regarding intraspecific variations in mtDNA.

Jet and underlying event properties as a function of charged-particle multiplicity in proton-proton collisions at root s=7 TeV

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Search for supersymmetry in pp collisions at root s=8 TeV in events with a single lepton, large jet multiplicity, and multiple b jets

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)