Optimized cross-slot flow geometry for microfluidic extension rheometry

A precision-machined cross-slot flow geometry with a shape that has been optimized by numerical simulation of the fluid kinematics is fabricated and used to measure the extensional viscosity of a dilute polymer solution. Full-field birefringence microscopy is used to monitor the evolution and growth of macromolecular anisotropy along the stagnation point streamline, and we observe the formation of a strong and uniform birefringent strand when the dimensionless flow strength exceeds a critical Weissenberg number Wicrit 0:5. Birefringence and bulk pressure drop measurements provide self consistent estimates of the planar extensional viscosity of the fluid over a wide range of deformation rates (26 s1 "_ 435 s1) and are also in close agreement with numerical simulations performed by using a finitely extensible nonlinear elastic dumbbell model

Instabilities in stagnation point flows of polymer solutions

A recently developed microfluidic device, the optimized shape cross-slot extensional rheometer or OSCER [S. J. Haward, M. S. N. Oliveira, M. A. Alves, and G. H. McKinley, “Optimized cross-slot flow geometry for microfluidic extensional rheometry,” Phys. Rev. Lett.109, 128301 (Year: 2012)10.1103/PhysRevLett.109.128301], is used to investigate the stability of viscoelastic polymer solutions in an idealized planar stagnation point flow. Aqueous polymer solutions, consisting of poly(ethylene oxide) and of hyaluronic acid with various molecular weights and concentrations, are formulated in order to provide fluids with a wide range of rheological properties. Semi-dilute solutions of high molecular weight polymers provide highly viscoelastic fluids with long relaxation times, which achieve a high Weissenberg number (Wi) at flow rates for which the Reynolds number (Re) remains low; hence the elasticity number El = Wi/Re is high. Lower concentration solutions of moderate molecular weight polymers provide only weakly viscoelastic fluids in which inertia remains important and El is relatively low. Flow birefringence observations are used to visualize the nature of flow instabilities in the fluids as the volumetric flow rate through the OSCER device is steadily incremented. At low Wi and Re, all of the fluids display a steady, symmetric, and uniform “birefringent strand” of highly oriented polymer molecules aligned along the outflowing symmetry axis of the test geometry, indicating the stability of the flow field under such conditions. In fluids of El > 1, we observe steady elastic flow asymmetries beyond a critical Weissenberg number,Wi [subscript crit], that are similar in character to those already reported in standard cross-slot geometries [e.g., P. E. Arratia, C. C. Thomas, J. Diorio, and J. P. Gollub, “Elastic instabilities of polymer solutions in cross-channel flow,” Phys. Rev. Lett.96, 144502 (Year: 2006)10.1103/PhysRevLett.96.144502]. However, in fluids with El < 1 we observe a sequence of time-dependent inertio-elastic instabilities beyond a critical Reynolds number, Re[subscript crit], characterized by high frequency spatiotemporal oscillations of the birefringent strand. By plotting the critical limits of stability for the various fluids in the Wi-Re operating space, we are able to construct a stability diagram delineating the distinct steady symmetric, steady asymmetric and inertio-elastic flow regimes in this idealized planar elongational flow device.European Commission. Marie Curie Actions (FP7-PEOPLE-2011-IIF Grant 298220)United States. National Aeronautics and Space Administration (Microgravity Fluid Sciences (Code UG) Grant NNX09AV99G

The Single-Particle Spectral Function of 16O^{16}{\rm O}

The influence of short-range correlations on the $p$-wave single-particle spectral function in $^{16}{\rm O}$ is studied as a function of energy. This influence, which is represented by the admixture of high-momentum components, is found to be small in the $p$-shell quasihole wave functions. It is therefore unlikely that studies of quasihole momentum distributions using the $(e,e'p)$ reaction will reveal a significant contribution of high momentum components. Instead, high-momentum components become increasingly more dominant at higher excitation energy. The above observations are consistent with the energy distribution of high-momentum components in nuclear matter.Comment: 5 pages, RevTeX, 3 figure

Chromatin establishes an immature version of neuronal protocadherin selection during the naive-to-primed conversion of pluripotent stem cells.

In the mammalian genome, the clustered protocadherin (cPCDH) locus provides a paradigm for stochastic gene expression with the potential to generate a unique cPCDH combination in every neuron. Here we report a chromatin-based mechanism that emerges during the transition from the naive to the primed states of cell pluripotency and reduces, by orders of magnitude, the combinatorial potential in the human cPCDH locus. This mechanism selectively increases the frequency of stochastic selection of a small subset of cPCDH genes after neuronal differentiation in monolayers, 10-month-old cortical organoids and engrafted cells in the spinal cords of rats. Signs of these frequent selections can be observed in the brain throughout fetal development and disappear after birth, except in conditions of delayed maturation such as Down's syndrome. We therefore propose that a pattern of limited cPCDH-gene expression diversity is maintained while human neurons still retain fetal-like levels of maturation

Protein sequence and structure: Is one more fundamental than the other?

We argue that protein native state structures reside in a novel "phase" of matter which confers on proteins their many amazing characteristics. This phase arises from the common features of all globular proteins and is characterized by a sequence-independent free energy landscape with relatively few low energy minima with funnel-like character. The choice of a sequence that fits well into one of these predetermined structures facilitates rapid and cooperative folding. Our model calculations show that this novel phase facilitates the formation of an efficient route for sequence design starting from random peptides.Comment: 7 pages, 4 figures, to appear in J. Stat. Phy

Momentum Distribution in Nuclear Matter and Finite Nuclei

A simple method is presented to evaluate the effects of short-range correlations on the momentum distribution of nucleons in nuclear matter within the framework of the Green's function approach. The method provides a very efficient representation of the single-particle Green's function for a correlated system. The reliability of this method is established by comparing its results to those obtained in more elaborate calculations. The sensitivity of the momentum distribution on the nucleon-nucleon interaction and the nuclear density is studied. The momentum distributions of nucleons in finite nuclei are derived from those in nuclear matter using a local-density approximation. These results are compared to those obtained directly for light nuclei like $^{16}O$.Comment: 17 pages REVTeX, 10 figures ps files adde

Momentum and Energy Distributions of Nucleons in Finite Nuclei due to Short-Range Correlations

The influence of short-range correlations on the momentum and energy distribution of nucleons in nuclei is evaluated assuming a realistic meson-exchange potential for the nucleon-nucleon interaction. Using the Green-function approach the calculations are performed directly for the finite nucleus $^{16}$O avoiding the local density approximation and its reference to studies of infinite nuclear matter. The nucleon-nucleon correlations induced by the short-range and tensor components of the interaction yield an enhancement of the momentum distribution at high momenta as compared to the Hartree-Fock description. These high-momentum components should be observed mainly in nucleon knockout reactions like $(e,e'p)$ leaving the final nucleus in a state of high excitation energy. Our analysis also demonstrates that non-negligible contributions to the momentum distribution should be found in partial waves which are unoccupied in the simple shell-model. The treatment of correlations beyond the Brueckner-Hartree-Fock approximation also yields an improvement for the calculated ground-state properties.Comment: 12 pages RevTeX, 7 figures postscript files appende

A multi-decade record of high quality fCO2 data in version 3 of the Surface Ocean CO2 Atlas (SOCAT)

The Surface Ocean CO2 Atlas (SOCAT) is a synthesis of quality-controlled fCO2 (fugacity of carbon dioxide) values for the global surface oceans and coastal seas with regular updates. Version 3 of SOCAT has 14.7 million fCO2 values from 3646 data sets covering the years 1957 to 2014. This latest version has an additional 4.6 million fCO2 values relative to version 2 and extends the record from 2011 to 2014. Version 3 also significantly increases the data availability for 2005 to 2013. SOCAT has an average of approximately 1.2 million surface water fCO2 values per year for the years 2006 to 2012. Quality and documentation of the data has improved. A new feature is the data set quality control (QC) flag of E for data from alternative sensors and platforms. The accuracy of surface water fCO2 has been defined for all data set QC flags. Automated range checking has been carried out for all data sets during their upload into SOCAT. The upgrade of the interactive Data Set Viewer (previously known as the Cruise Data Viewer) allows better interrogation of the SOCAT data collection and rapid creation of high-quality figures for scientific presentations. Automated data upload has been launched for version 4 and will enable more frequent SOCAT releases in the future. High-profile scientific applications of SOCAT include quantification of the ocean sink for atmospheric carbon dioxide and its long-term variation, detection of ocean acidification, as well as evaluation of coupled-climate and ocean-only biogeochemical models. Users of SOCAT data products are urged to acknowledge the contribution of data providers, as stated in the SOCAT Fair Data Use Statement. This ESSD (Earth System Science Data) “living data” publication documents the methods and data sets used for the assembly of this new version of the SOCAT data collection and compares these with those used for earlier versions of the data collection (Pfeil et al., 2013; Sabine et al., 2013; Bakker et al., 2014). Individual data set files, included in the synthesis product, can be downloaded here: doi:10.1594/PANGAEA.849770. The gridded products are available here: doi:10.3334/CDIAC/OTG.SOCAT_V3_GRID

Priming by Chemokines Restricts Lateral Mobility of the Adhesion Receptor LFA-1 and Restores Adhesion to ICAM-1 Nano-Aggregates on Human Mature Dendritic Cells

LFA-1 is a leukocyte specific β2 integrin that plays a major role in regulating adhesion and migration of different immune cells. Recent data suggest that LFA-1 on mature dendritic cells (mDCs) may function as a chemokine-inducible anchor during homing of DCs through the afferent lymphatics into the lymph nodes, by transiently switching its molecular conformational state. However, the role of LFA-1 mobility in this process is not yet known, despite that the importance of lateral organization and dynamics for LFA-1-mediated adhesion regulation is broadly recognized. Using single particle tracking approaches we here show that LFA-1 exhibits higher mobility on resting mDCs compared to monocytes. Lymphoid chemokine CCL21 stimulation of the LFA-1 high affinity state on mDCs, led to a significant reduction of mobility and an increase on the fraction of stationary receptors, consistent with re-activation of the receptor. Addition of soluble monomeric ICAM-1 in the presence of CCL21 did not alter the diffusion profile of LFA-1 while soluble ICAM-1 nano-aggregates in the presence of CCL21 further reduced LFA-1 mobility and readily bound to the receptor. Overall, our results emphasize the importance of LFA-1 lateral mobility across the membrane on the regulation of integrin activation and its function as adhesion receptor. Importantly, our data show that chemokines alone are not sufficient to trigger the high affinity state of the integrin based on the strict definition that affinity refers to the adhesion capacity of a single receptor to its ligand in solution. Instead our data indicate that nanoclustering of the receptor, induced by multi-ligand binding, is required to maintain stable cell adhesion once LFA-1 high affinity state is transiently triggered by inside-out signals.Peer ReviewedPostprint (published version

In Vivo Approaches Reveal a Key Role for DCs in CD4+ T Cell Activation and Parasite Clearance during the Acute Phase of Experimental Blood-Stage Malaria

Dendritic cells (DCs) are phagocytes that are highly specialized for antigen presentation. Heterogeneous populations of macrophages and DCs form a phagocyte network inside the red pulp (RP) of the spleen, which is a major site for the control of blood-borne infections such as malaria. However, the dynamics of splenic DCs during Plasmodium infections are poorly understood, limiting our knowledge regarding their protective role in malaria. Here, we used in vivo experimental approaches that enabled us to deplete or visualize DCs in order to clarify these issues. To elucidate the roles of DCs and marginal zone macrophages in the protection against blood-stage malaria, we infected DTx (diphtheria toxin)-treated C57BL/6.CD11c-DTR mice, as well as C57BL/6 mice treated with low doses of clodronate liposomes (ClLip), with Plasmodium chabaudi AS (Pc) parasites. The first evidence suggesting that DCs could contribute directly to parasite clearance was an early effect of the DTx treatment, but not of the ClLip treatment, in parasitemia control. DCs were also required for CD4+ T cell responses during infection. The phagocytosis of infected red blood cells (iRBCs) by splenic DCs was analyzed by confocal intravital microscopy, as well as by flow cytometry and immunofluorescence, at three distinct phases of Pc malaria: at the first encounter, at pre-crisis concomitant with parasitemia growth and at crisis when the parasitemia decline coincides with spleen closure. In vivo and ex vivo imaging of the spleen revealed that DCs actively phagocytize iRBCs and interact with CD4+ T cells both in T cell-rich areas and in the RP. Subcapsular RP DCs were highly efficient in the recognition and capture of iRBCs during pre-crisis, while complete DC maturation was only achieved during crisis. These findings indicate that, beyond their classical role in antigen presentation, DCs also contribute to the direct elimination of iRBCs during acute Plasmodium infection.São Paulo Research Foundation grants: (2011/24038-1 [MRDL], 2009/08559-1 [HBdS], CAPES/IGC 04/ 2012 [MRDL, CET])