Euler flow predictions for an oscillating cascade using a high resolution wave-split scheme

A compressible flow code that can predict the nonlinear unsteady aerodynamics associated with transonic flows over oscillating cascades is developed and validated. The code solves the two dimensional, unsteady Euler equations using a time-marching, flux-difference splitting scheme. The unsteady pressures and forces can be determined for arbitrary input motions, although only harmonic pitching and plunging motions are addressed. The code solves the flow equations on a H-grid which is allowed to deform with the airfoil motion. Predictions are presented for both flat plate cascades and loaded airfoil cascades. Results are compared to flat plate theory and experimental data. Predictions are also presented for several oscillating cascades with strong normal shocks where the pitching amplitudes, cascade geometry and interblade phase angles are varied to investigate nonlinear behavior

Computation of steady and unsteady quasi-one-dimensional viscous/inviscid interacting internal flows at subsonic, transonic, and supersonic Mach numbers

Computations of viscous-inviscid interacting internal flowfields are presented for steady and unsteady quasi-one-dimensional (Q1D) test cases. The unsteady Q1D Euler equations are coupled with integral boundary-layer equations for unsteady, two-dimensional (planar or axisymmetric), turbulent flow over impermeable, adiabatic walls. The coupling methodology differs from that used in most techniques reported previously in that the above mentioned equation sets are written as a complete system and solved simultaneously; that is, the coupling is carried out directly through the equations as opposed to coupling the solutions of the different equation sets. Solutions to the coupled system of equations are obtained using both explicit and implicit numerical schemes for steady subsonic, steady transonic, and both steady and unsteady supersonic internal flowfields. Computed solutions are compared with measurements as well as Navier-Stokes and inverse boundary-layer methods. An analysis of the eigenvalues of the coefficient matrix associated with the quasi-linear form of the coupled system of equations indicates the presence of complex eigenvalues for certain flow conditions. It is concluded that although reasonable solutions can be obtained numerically, these complex eigenvalues contribute to the overall difficulty in obtaining numerical solutions to the coupled system of equations

Flutter analysis of supersonic axial flow cascades using a high resolution Euler solver. Part 1: Formulation and validation

This report presents, in two parts, a dynamic aeroelastic stability (flutter) analysis of a cascade of blades in supersonic axial flow. Each blade of the cascade is modeled as a typical section having pitching and plunging degrees of freedom. Aerodynamic forces are obtained from a time accurate, unsteady, two-dimensional cascade solver based on the Euler equations. The solver uses a time marching flux-difference splitting (FDS) scheme. Flutter stability is analyzed in the frequency domain. The unsteady force coefficients required in the analysis are obtained by harmonically oscillating (HO) the blades for a given flow condition, oscillation frequency, and interblade phase angle. The calculated time history of the forces is then Fourier decomposed to give the required unsteady force coefficients. An influence coefficient (IC) method and a pulse response (PR) method are also implemented to reduce the computational time for the calculation of the unsteady force coefficients for any phase angle and oscillation frequency. Part 1, this report, presents these analysis methods and their validation by comparison with results obtained from linear theory for a selected flat plate cascade geometry. A typical calculation for a rotor airfoil is also included to show the applicability of the present solver for airfoil configurations. The predicted unsteady aerodynamic forces for a selected flat plate cascade geometry and flow conditions correlated well with those obtained from linear theory for different interblade phase angles and oscillation frequencies. All the three methods of predicting unsteady force coefficients, namely, HO, IC, and PR, showed good correlations with each other. It was established that only a single calculation with four blade passages is required to calculate the aerodynamic forces for any phase angle for a cascade consisting of any number of blades, for any value of the oscillation frequency. Flutter results, including mistuning effects, for a cascade of stator airfoils are presented in Part 2 of the report

American Gut: an Open Platform for Citizen Science Microbiome Research

McDonald D, Hyde E, Debelius JW, et al. American Gut: an Open Platform for Citizen Science Microbiome Research. mSystems. 2018;3(3):e00031-18

American Gut: an Open Platform for Citizen Science Microbiome Research.

Although much work has linked the human microbiome to specific phenotypes and lifestyle variables, data from different projects have been challenging to integrate and the extent of microbial and molecular diversity in human stool remains unknown. Using standardized protocols from the Earth Microbiome Project and sample contributions from over 10,000 citizen-scientists, together with an open research network, we compare human microbiome specimens primarily from the United States, United Kingdom, and Australia to one another and to environmental samples. Our results show an unexpected range of beta-diversity in human stool microbiomes compared to environmental samples; demonstrate the utility of procedures for removing the effects of overgrowth during room-temperature shipping for revealing phenotype correlations; uncover new molecules and kinds of molecular communities in the human stool metabolome; and examine emergent associations among the microbiome, metabolome, and the diversity of plants that are consumed (rather than relying on reductive categorical variables such as veganism, which have little or no explanatory power). We also demonstrate the utility of the living data resource and cross-cohort comparison to confirm existing associations between the microbiome and psychiatric illness and to reveal the extent of microbiome change within one individual during surgery, providing a paradigm for open microbiome research and education. IMPORTANCE We show that a citizen science, self-selected cohort shipping samples through the mail at room temperature recaptures many known microbiome results from clinically collected cohorts and reveals new ones. Of particular interest is integrating n = 1 study data with the population data, showing that the extent of microbiome change after events such as surgery can exceed differences between distinct environmental biomes, and the effect of diverse plants in the diet, which we confirm with untargeted metabolomics on hundreds of samples

American Gut:an Open Platform for Citizen Science Microbiome Research

Although much work has linked the human microbiome to specific phenotypes and lifestyle variables, data from different projects have been challenging to integrate and the extent of microbial and molecular diversity in human stool remains unknown. Using standardized protocols from the Earth Microbiome Project and sample contributions from over 10,000 citizen-scientists, together with an open research network, we compare human microbiome specimens primarily from the United States, United Kingdom, and Australia to one another and to environmental samples. Our results show an unexpected range of beta-diversity in human stool microbiomes compared to environmental samples; demonstrate the utility of procedures for removing the effects of overgrowth during room-temperature shipping for revealing phenotype correlations; uncover new molecules and kinds of molecular communities in the human stool metabolome; and examine emergent associations among the microbiome, metabolome, and the diversity of plants that are consumed (rather than relying on reductive categorical variables such as veganism, which have little or no explanatory power). We also demonstrate the utility of the living data resource and cross-cohort comparison to confirm existing associations between the microbiome and psychiatric illness and to reveal the extent of microbiome change within one individual during surgery, providing a paradigm for open microbiome research and education. IMPORTANCE We show that a citizen science, self-selected cohort shipping samples through the mail at room temperature recaptures many known microbiome results from clinically collected cohorts and reveals new ones. Of particular interest is integrating n = 1 study data with the population data, showing that the extent of microbiome change after events such as surgery can exceed differences between distinct environmental biomes, and the effect of diverse plants in the diet, which we confirm with untargeted metabolomics on hundreds of samples

American Gut Project fecal sOTU counts table

The Deblur sOTU counts table for the fecal samples used in the American Gut Project manuscript. The samples were trimmed to a common read length of 125nt, and processed by Deblur (Amir et al mSystems 2017). Blooms were removed (Amir et al mSystems 2017) and any sample with fewer than 1250 sequences was omitted. This table is not rarefied,

movie_s2.mp4

Placing changes in the microbiome in the context of the American Gut. We accumulated samples over sequencing runs to demonstrate the structural consistency in the data. We demonstrate that while the ICU dataset (https://www.ncbi.nlm.nih.gov/pubmed/27602409) falls within the American Gut samples, they do not fall close to most samples at any of the body sites. We then highlight samples from the United Kingdom, Australia, the United States and other countries to show that nationality does not overcome the variation in body site. We then highlight the utility of the American Gut in meta-analysis by reproducing results from (https://www.ncbi.nlm.nih.gov/pubmed/20668239) and (https://www.ncbi.nlm.nih.gov/pubmed/23861384), using the AGP dataset as the context for dynamic microbiome changes instead of the HMP dataset. We show rapid, complete recovery of C. diff patients following fecal material transplantation and also contextualized the change in an infant gut over time until it settles into an adult state. This demonstrates the power of the American Gut dataset, both as a cohesive study and as a context for other investigations