Constraint and competition in assemblages: a cross continental and modeling approach for ants

The mechanisms leading to structure in local assemblages are controversial. On the one hand, assemblage structure is thought to be the outcome of local interactions determined by the properties of species and their responses to the local environment. Alternatively, this structure has been shown to be an emergent property of assemblages of identical individuals or of random sampling of a regional assemblage. In ants at baits, a combination of environmental stress and interspecific competition is widely held to lead to a unimodal relationship between the abundance of dominant ants and species richness. It is thought that in comparatively adverse environments, both abundance and richness are low. As habitats become more favorable, abundance increases until the abundance of dominant ants is so high that they exclude those that are subordinate and so depress richness. Here we demonstrate empirically that this relationship is remarkably similar across three continents. Using a null model approach, we then show that the ascending part of the relationship is largely constrained to take this form not simply as a consequence of stress but also as a result of the shape of abundance frequency distributions. While the form of the species-abundance frequency distribution can also produce the descending part of the relationship, interspecific competition might lead to it too. Scatter about the relationship, which is generally not discussed in the literature, may well be a consequence of resource availability and environmental patchiness. Our results draw attention to the significance of regional processes in structuring ant assemblages

SO(5) theory of insulating vortex cores in high-TcT_c materials

We study the fermionic states of the antiferromagnetically ordered vortex cores predicted to exist in the superconducting phase of the newly proposed SO(5) model of strongly correlated electrons. Our model calculation gives a natural explanation of the recent STM measurements on BSCCO, which in surprising contrast to YBCO revealed completely insulating vortex cores.Comment: 4 pages, 1 figur

Onset of magnetism in B2 transition metals aluminides

Ab initio calculation results for the electronic structure of disordered bcc Fe(x)Al(1-x) (0.4<x<0.75), Co(x)Al(1-x) and Ni(x)Al(1-x) (x=0.4; 0.5; 0.6) alloys near the 1:1 stoichiometry, as well as of the ordered B2 (FeAl, CoAl, NiAl) phases with point defects are presented. The calculations were performed using the coherent potential approximation within the Korringa-Kohn-Rostoker method (KKR-CPA) for the disordered case and the tight-binding linear muffin-tin orbital (TB-LMTO) method for the intermetallic compounds. We studied in particular the onset of magnetism in Fe-Al and Co-Al systems as a function of the defect structure. We found the appearance of large local magnetic moments associated with the transition metal (TM) antisite defect in FeAl and CoAl compounds, in agreement with the experimental findings. Moreover, we found that any vacancies on both sublattices enhance the magnetic moments via reducing the charge transfer to a TM atom. Disordered Fe-Al alloys are ferromagnetically ordered for the whole range of composition studied, whereas Co-Al becomes magnetic only for Co concentration >0.5.Comment: 11 pages with 9 embedded postscript figures, to be published in Phys.Rev.

MethCORR modelling of methylomes from formalin-fixed paraffin-embedded tissue enables characterization and prognostication of colorectal cancer

Transcriptional characterization and classification has potential to resolve the inter-tumor heterogeneity of colorectal cancer and improve patient management. Yet, robust transcriptional profiling is difficult using formalin-fixed, paraffin-embedded (FFPE) samples, which complicates testing in clinical and archival material. We present MethCORR, an approach that allows uniform molecular characterization and classification of fresh-frozen and FFPE samples. MethCORR identifies genome-wide correlations between RNA expression and DNA methylation in fresh-frozen samples. This information is used to infer gene expression information in FFPE samples from their methylation profiles. MethCORR is here applied to methylation profiles from 877 fresh-frozen/FFPE samples and comparative analysis identifies the same two subtypes in four independent cohorts. Furthermore, subtype-specific prognostic biomarkers that better predicts relapse-free survival (HR = 2.66, 95%CI [1.67-4.22], P value < 0.001 (log-rank test)) than UICC tumor, node, metastasis (TNM) staging and microsatellite instability status are identified and validated using DNA methylation-specific PCR. The MethCORR approach is general, and may be similarly successful for other cancer types

The disulphide isomerase DsbC cooperates with the oxidase DsbA in a DsbD-independent manner

In Escherichia coli , DsbA introduces disulphide bonds into secreted proteins. DsbA is recycled by DsbB, which generates disulphides from quinone reduction. DsbA is not known to have any proofreading activity and can form incorrect disulphides in proteins with multiple cysteines. These incorrect disulphides are thought to be corrected by a protein disulphide isomerase, DsbC, which is kept in the reduced and active configuration by DsbD. The DsbC/DsbD isomerization pathway is considered to be isolated from the DsbA/DsbB pathway. We show that the DsbC and DsbA pathways are more intimately connected than previously thought. dsbA - dsbC - mutants have a number of phenotypes not exhibited by either dsbA - , dsbC - or dsbA - dsbD - mutations: they exhibit an increased permeability of the outer membrane, are resistant to the lambdoid phage φ80, and are unable to assemble the maltoporin LamB. Using differential two-dimensional liquid chromatographic tandem mass spectrometry/mass spectrometry analysis, we estimated the abundance of about 130 secreted proteins in various dsb - strains. dsbA - dsbC - mutants exhibit unique changes at the protein level that are not exhibited by dsbA - dsbD - mutants. Our data indicate that DsbC can assist DsbA in a DsbD-independent manner to oxidatively fold envelope proteins. The view that DsbC's function is limited to the disulphide isomerization pathway should therefore be reinterpreted.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/72894/1/MMI_6030_sm_Tables_S1-S4.pdfhttp://deepblue.lib.umich.edu/bitstream/2027.42/72894/2/MMI_tables_s1-s4.pdfhttp://deepblue.lib.umich.edu/bitstream/2027.42/72894/3/j.1365-2958.2007.06030.x.pd

Spectral and transport properties of doped Mott-Hubbard systems with incommensurate magnetic order

We present spectral and optical properties of the Hubbard model on a two-dimensional square lattice using a generalization of dynamical mean-field theory to magnetic states in finite dimension. The self-energy includes the effect of spin fluctuations and screening of the Coulomb interaction due to particle-particle scattering. At half-filling the quasiparticles reduce the width of the Mott-Hubbard `gap' and have dispersions and spectral weights that agree remarkably well with quantum Monte Carlo and exact diagonalization calculations. Away from half-filling we consider incommensurate magnetic order with a varying local spin direction, and derive the photoemission and optical spectra. The incommensurate magnetic order leads to a pseudogap which opens at the Fermi energy and coexists with a large Mott-Hubbard gap. The quasiparticle states survive in the doped systems, but their dispersion is modified with the doping and a rigid band picture does not apply. Spectral weight in the optical conductivity is transferred to lower energies and the Drude weight increases linearly with increasing doping. We show that incommensurate magnetic order leads also to mid-gap states in the optical spectra and to decreased scattering rates in the transport processes, in qualitative agreement with the experimental observations in doped systems. The gradual disappearence of the spiral magnetic order and the vanishing pseudogap with increasing temperature is found to be responsible for the linear resistivity. We discuss the possible reasons why these results may only partially explain the features observed in the optical spectra of high temperature superconductors.Comment: 22 pages, 18 figure

Surface magnetism in iron, cobalt, and nickel

We have calculated magnetic moments, work functions, and surface energies for several of the most closely packed surfaces of iron, cobalt, and nickel by means of a spin-polarized Green’s-function technique based on the linear muffin-tin orbitals method within the tight-binding and atomic sphere approximations. We find enhanced spin moments at all the surfaces considered except for Ni fcc(111), where the moment at the surface reverts to its bulk value. This is in close agreement with earlier slab calculations. In addition, we find that the calculated work functions and surface energies agree with experimental values to within 10%, which may be considered most satisfactory in view of the computational efficiency of the Green’s function technique. Exchange and correlation have been treated wihtin the local spin-density approximation and we have considered three different parametrizations of the original many-body data. We find that the calculated work functions depend as much on the choice of this parametrization as on the effect of spin polarization

Retardadores de crescimento no desenvolvimento e na qualidade ornamental de Zinnia elegans Jacq. 'Lilliput' envasada

As zínias têm grande potencial como plantas floríferas envasadas e representam rápida fonte de novidade para a floricultura com o auxílio de retardadores de crescimento. Avaliaram-se os efeitos de retardadores de crescimento no desenvolvimento e na produção de plantas envasadas de porte baixo, compactas e atrativas de 'Lilliput' Zinnia elegans, cultivar altamente ornamental, com sementes de baixo custo. O delineamento experimental foi em blocos casualizados, com dez tratamentos (controle e três concentrações de cada retardador: daminozide, paclobutrazol e chlormequat) e quatro repetições (dois vasos por unidade experimental, com uma planta por vaso de 0,6 L). Paclobutrazol (0,5; 0,75 e 1,0 mg i.a. por vaso) e chlormequat (1,0; 2,0 e 3,0 g L-1) foram aplicados ao substrato (40 mL por vaso), enquanto o daminozide (2,5; 3,75 e 5,0 g L-1) foi aplicado através de pulverização foliar (10 mL por vaso), no estádio de gema floral apical visível. Daminozide (2,5 e 3,75 g L-1), paclobutrazol (0,5; 0,75 e 1,0 mg i.a. por vaso) e 1,0 g L-1 de chlormequat reduziram significativamente a altura das plantas e o comprimento dos ramos laterais, sem afetar o diâmetro dos capítulos, atrasar o ciclo de produção e causar fitotoxicidade. Entretanto, as plantas não se apresentaram suficientemente baixas e compactas para atender às exigências de qualidade do mercado. Chlormequat (2,0 e 3,0 g L-1) causou fitotoxicidade e daminozide (5,0 g L-1) aumentou o ciclo de produção.Zinnias have good potential to be used as flowering, potted plants, being a quick source of novelty for the floriculture industry with the aid of growth retardants. This study evaluated the effect of growth retardants on development and production of short, compact and attractive plants of potted 'Lilliput' Zinnia elegans, a highly ornamental zinnia with low cost seeds. Trials were set up in randomized blocks, with ten treatments (control and three treatments of each retardant: daminozide, paclobutrazol and chlormequat) and four replications (two pots per experimental unit, with one plant per 0.6-L pot). Paclobutrazol (0.5, 0.75 and 1.0 mg a.i. per pot) and chlormequat (1.0, 2.0 and 3.0 g L-1) were applied as a single drench (40 mL per pot), and daminozide (2.5, 3.75 and 5.0 g L-1) as a single foliar spray to runoff (10 mL per pot), at apical flower bud stage. Daminozide (2.5 and 3.75 g L-1), paclobutrazol (0.5, 0.75 and 1.0 mg a.i. per pot) and chlormequat at 1.0 g L-1 significantly reduced plant height and side branches length, without affecting flower diameter, delaying production cycle and causing phytotoxicity symptoms. However, plants were not short and compact enough to meet market quality demand. Chlormequat (2.0 and 3.0 g L-1) caused phytotoxicity symptoms and daminozide (5.0 g L-1) delayed production cycle