Late Pleistocene and Recent Missouri River Terraces in the Big Bend Reservoir, South Dakota

Three cut-and-fill terraces of the Missouri River are present in the Big Bend Reservoir. The upper terrace (Mt-2), tentatively correlated with the Cary moraine, consists of outwash sands and gravels. It stands at heights of 80-100 feet above the river. Its surface is capped by a deposit of as much as 30 feet of aeolian sand and silt. The intermediate terrace (Mt-1) consists of gravel, sand, and silt, and stands at heights of 35-45 feet above the river. It, too, is capped with aeolian sand and silt. This terrace is tentatively dated as Mankato, but may be younger. The lower terrace (Mt-0) stands 10-15 feet above the average river level and is the flood plain of the present Missouri River. The upper part of the terrace fill consists of sand and silt of Recent age. The lower part of the fill is gravel, sand, and silt and is probably post-Altithermal but may be late Pleistocene in age. Several humic horizons are present in the silt covering both Mt-1 and Mt-2, and a well-defined paleosol is buried in the silt on Mt-2. Study of these horizons indicates the possibilities of correlating them with geological events and of finding a stratigraphic separation of archeological remains dating from Pleistocene to late prehistoric times

Moir\'e patterns in quantum images

We observed moir\'e fringes in spatial quantum correlations between twin photons generated by parametric down-conversion. Spatially periodic structures were nonlocally superposed giving rise to beat frequencies typical of moir\'e patterns. This result brings interesting perspectives regarding metrological applications of such a quantum optical setup.Comment: 4 pages, 5 figure

Transcriptome profiling of granulosa cells of bovine ovarian follicles during growth from small to large antral sizes

Background: At later stages of folliculogenesis, the mammalian ovarian follicle contains layers of epithelial granulosa cells surrounding an antral cavity. During follicle development granulosa cells replicate, secrete hormones and support the growth of the oocyte. In cattle, the follicle needs to grow > 10 mm in diameter to allow an oocyte to ovulate, following which the granulosa cells cease dividing and differentiate into the specialised cells of the corpus luteum. To better understand the molecular basis of follicular growth and granulosa cell maturation, we undertook transcriptome profiling of granulosa cells from small ( 10 mm, n = 4) healthy bovine follicles using Affymetrix microarrays (24,128 probe sets).Results: Principal component analysis for the first two components and hierarchical clustering showed clustering into two groups, small and large, with the former being more heterogeneous. Size-frequency distributions of the coefficient of variation of the signal intensities of each probe set also revealed that small follicles were more heterogeneous than the large. IPA and GO enrichment analyses revealed that processes of axonal guidance, immune signalling and cell rearrangement were most affected in large follicles. The most important networks were associated with: (A) Notch, SLIT/ROBO and PI3K signalling, and (B) ITGB5 and extracellular matrix signalling through extracellular signal related kinases (ERKs). Upstream regulator genes which were predicted to be active in large follicles included STAT and XBP1. By comparison, developmental processes such as those stimulated by KIT, IHH and MEST were most active in small follicles. MGEA5 was identified as an upstream regulator in small follicles. It encodes an enzyme that modifies the activity of many target proteins, including those involved in energy sensing, by removal of N-acetylglucosamine from serine and threonine residues.Conclusions: Our data suggest that as follicles enlarge more genes and/or pathways are activated than are inactivated, and gene expression becomes more uniform. These findings could be interpreted that either the cells in large follicles are more uniform in their gene expression, or that follicles are more uniform or a combination of both and that additional factors, such as LH, are additionally controlling the granulosa cells. © 2014 Hatzirodos et al.; licensee BioMed Central Ltd.Nicholas Hatzirodos, Helen F Irving-Rodgers, Katja Hummitzsch, Margaret L Harland, Stephanie E Morris and Raymond J Rodger

Transcriptome profiling of granulosa cells from bovine ovarian follicles during atresia

Background: The major function of the ovary is to produce oocytes for fertilisation. Oocytes mature in follicles surrounded by nurturing granulosa cells and all are enclosed by a basal lamina. During growth, granulosa cells replicate and a large fluid-filled cavity (the antrum) develops in the centre. Only follicles that have enlarged to over 10 mm can ovulate in cows. In mammals, the number of primordial follicles far exceeds the numbers that ever ovulate and atresia or regression of follicles is a mechanism to regulate the number of oocytes ovulated and to contribute to the timing of ovulation. To better understand the molecular basis of follicular atresia, we undertook transcriptome profiling of granulosa cells from healthy (n = 10) and atretic (n = 5) bovine follicles at early antral stages (< 5 mm). Results: Principal Component Analysis (PCA) and hierarchical classification of the signal intensity plots for the arrays showed primary clustering into two groups, healthy and atretic. These analyses and size-frequency plots of coefficients of variation of signal intensities revealed that the healthy follicles were more heterogeneous. Examining the differentially-expressed genes the most significantly affected functions in atretic follicles were cell death, organ development, tissue development and embryonic development. The overall processes influenced by transcription factor gene TP53 were predicted to be activated, whereas those of MYC were inhibited on the basis of known interactions with the genes in our dataset. The top ranked canonical pathway contained signalling molecules common to various inflammatory/fibrotic pathways such as the transforming growth factor-beta and tumour necrosis factor-alpha pathways. The two most significant networks also reflect this pattern of tissue remodelling/fibrosis gene expression. These networks also contain molecules which are present in the canonical pathways of hepatic fibrosis/hepatic stellate cell activation and transforming growth factor-beta signalling and were up regulated. Conclusions: Small healthy antral follicles, which have a number of growth outcomes, exhibit greater variability in gene expression, particularly in genes associated with cell division and other growth-related functions. Atresia, on the other hand, not only involves cell death but clearly is an active process similar to wound healing.Nicholas Hatzirodos, Katja Hummitzsch, Helen F Irving-Rodgers, Margaret L Harland, Stephanie E Morris and Raymond J Rodger

A Particle-based Multiscale Solver for Compressible Liquid-Vapor Flow

To describe complex flow systems accurately, it is in many cases important to account for the properties of fluid flows on a microscopic scale. In this work, we focus on the description of liquid-vapor flow with a sharp interface between the phases. The local phase dynamics at the interface can be interpreted as a Riemann problem for which we develop a multiscale solver in the spirit of the heterogeneous multiscale method, using a particle-based microscale model to augment the macroscopic two-phase flow system. The application of a microscale model makes it possible to use the intrinsic properties of the fluid at the microscale, instead of formulating (ad-hoc) constitutive relations

Mechanisms of the reaction pi^-p --> a^0_0(980)n --> p-^0 eta n at high energies

The main dynamical mechanisms of the reaction $\pi^-p \rightarrow a^0_0 (980)n \rightarrow \pi^0\eta n$ at high energies, currently investigated at Serpukhov and Brookhaven, are considered in detail. It is shown that the observed forward peak in its differential cross section can be explained within the framework of the Regge pole model only by the conspiring $\rho_2$ Regge pole exchange. The tentative estimates of the absolute $\pi^-p \rightarrow a^0_0(980)n \rightarrow \pi^0\eta n$ reaction cross section at $P_{lab}^{\pi^-} = 18$ GeV/c are obtained: $\sigma\approx200$ nb and, in the forward direction, $d\sigma/dt\approx940$ nb/GeV$^2$. The contribution of the one pion exchange, which is forbidden by $G$-parity and which can rise owing to the $f^0_0(980)-a^0_0(980)$ mixing, is also estimate. A role of the Regge cuts in the non-flip helicity amplitude is briefly examined and a conclusion is made that the contributions of the cuts have to be inessential in comparison with the conspiring $\rho_2$ Regge pole exchange.Comment: 14 pages, Latex, 2 ps figure

A feasibility randomised controlled trial of the New Orleans intervention of infant mental health: a study protocol

Child maltreatment is associated with life-long social, physical, and mental health problems. Intervening early to provide maltreated children with safe, nurturing care can improve outcomes. The need for prompt decisions about permanent placement (i.e., regarding adoption or return home) is internationally recognised. However, a recent Glasgow audit showed that many maltreated children “revolve” between birth families and foster carers. This paper describes the protocol of the first exploratory randomised controlled trial of a mental health intervention aimed at improving placement permanency decisions for maltreated children. This trial compares an infant's mental health intervention with the new enhanced service as usual for maltreated children entering care in Glasgow. As both are new services, the trial is being conducted from a position of equipoise. The outcome assessment covers various fields of a child’s neurodevelopment to identify problems in any ESSENCE domain. The feasibility, reliability, and developmental appropriateness of all outcome measures are examined. Additionally, the potential for linkage with routinely collected data on health and social care and, in the future, education is explored. The results will inform a definitive randomised controlled trial that could potentially lead to long lasting benefits for the Scottish population and which may be applicable to other areas of the world

Transcriptome comparisons identify new cell markers for theca interna and granulosa cells from small and large antral ovarian follicles

In studies using isolated ovarian granulosa and thecal cells it is important to assess the degree of cross contamination. Marker genes commonly used for granulosa cells include FSHR, CYP19A1 and AMH while CYP17A1 and INSL3 are used for thecal cells. To increase the number of marker genes available we compared expression microarray data from isolated theca interna with that from granulosa cells of bovine small (n = 10 for both theca and granulosa cells; 3-5 mm) and large (n = 4 for both theca and granulosa cells, > 9 mm) antral follicles. Validation was conducted by qRT-PCR analyses. Known markers such as CYP19A1, FSHR and NR5A2 and another 11 genes (LOC404103, MGARP, GLDC, CHST8, CSN2, GPX3, SLC35G1, CA8, CLGN, FAM78A, SLC16A3) were common to the lists of the 50 most up regulated genes in granulosa cells from both follicle sizes. The expression in theca interna was more consistent than in granulosa cells between the two follicle sizes. Many genes up regulated in theca interna were common to both sizes of follicles (MGP, DCN, ASPN, ALDH1A1, COL1A2, FN1, COL3A1, OGN, APOD, COL5A2, IGF2, NID1, LHFP, ACTA2, DUSP12, ACTG2, SPARCL1, FILIP1L, EGFLAM, ADAMDEC1, HPGD, COL12A1, FBLN5, RAMP2, COL15A1, PLK2, COL6A3, LOXL1, RARRES1, FLI1, LAMA2). Many of these were stromal extracellular matrix genes. MGARP, GLDC, CHST8, GPX3 were identified as new potential markers for granulosa cells, while FBLN5, OGN, RAMP2 were significantly elevated in the theca interna.Nicholas Hatzirodos, Katja Hummitzsch, Helen F. Irving-Rodgers, Raymond J. Rodger

Transcriptome profiling of the theca interna from bovine ovarian follicles during atresia

The theca interna is a specialized stromal layer that envelops each growing ovarian follicle. It contains capillaries, fibroblasts, immune cells and the steroidogenic cells that synthesize androgens for conversion to estradiol by the neighboring granulosa cells. During reproductive life only a small number of follicles will grow to a sufficient size to ovulate, whereas the majority of follicles will undergo regression/atresia and phagocytosis by macrophages. To identify genes which are differentially regulated in the theca interna during follicular atresia, we undertook transcriptome profiling of the theca interna from healthy (n = 10) and antral atretic (n = 5) bovine follicles at early antral stages (<5 mm). Principal Component Analyses and hierarchical classification of the signal intensity plots for the arrays showed primary clustering into two groups, healthy and atretic. A total of 543 probe sets were differentially expressed between the atretic and healthy theca interna. Further analyses of these genes by Ingenuity Pathway Analysis and Gene Ontology Enrichment Analysis Toolkit software found most of the genes being expressed were related to cytokines, hormones and receptors as well as the cell cycle and DNA replication. Cell cycle genes which encode components of the replicating chromosome complex and mitotic spindle were down-regulated in atretic theca interna, whereas stress response and inflammation-related genes such as TP53, IKBKB and TGFB1 were up-regulated. In addition to cell cycle regulators, upstream regulators that were predicted to be inhibited included Retinoblastoma 1, E2 transcription factor 1, and hepatocyte growth factor. Our study suggests that during antral atresia of small follicles in the theca interna, arrest of cell cycle and DNA replication occurs rather than up- regulation of apoptosis-associated genes as occurs in granulosa cells.Nicholas Hatzirodos, Helen F. Irving-Rodgers, Katja Hummitzsch, Raymond J. Rodger

Quark mass dependence of hadron masses from lattice QCD

We discuss lattice methods to obtain the derivatives of a lattice meson mass with respect to the bare sea and valence quark masses. Applications are made to quenched and dynamical fermion configurations. We find evidence for significant differences between quenched and dynamical fermion configurations. We discuss how to relate dependence on the bare lattice parameters to more phenomenologically useful quantities.Comment: 18 pages, 5 figures, typos fixed and reference adde