Photoperiodically driven changes in Fos expression within the basal tuberal hypothalamus and median eminence of Japanese quail

The rapid photoperiodic response in Japanese quail is so precise that it allows neural analyses of how photoperiodic information is transduced into an endocrine response. After transfer from short [SD; 6L:18D (6:18 hr light/dark cycle)] to long (LD; 20L:4D) days, luteinizing hormone (LH) first rises 20 hr after dawn. Using Fos immunocytochemistry, we examined the basal tuberal hypothalamus (BtH) to determine the relationship between brain cell activation and the first endocrine changes. Two separate cell populations within the BtH expressed Fos-like immunoreactivity (FLI) by hour 18 of the first LD. Importantly, this activation occurred before the LH rise. Median eminence activation appeared within glial cells, whereas activated infundibular nucleus cells were neuronal, providing support to the view that gonadotropin-releasing hormone (GnRH) release can be controlled at the terminals by glia. The FLI induction parallels LH changes, suggesting that gene expression may be involved in events preceding photostimulation and is the earliest photoperiodically stimulated physiological change yet reported.Additional experiments provided further support for this hypothesis. First, photoperiodically induced activation is not a result peculiar to castrates because intact birds displayed similar results. Second, the critical length of 14 hr of light had to be exceeded to cause both BtH activation and a LH rise 30 hr from dawn. Finally, valuable evidence of the response specificity was provided by using a unique property of the quail photoperiodic clock in which exposure to 10L:26D, but not 10L:14D, causes photoinduction. The 36 hr paradigm increased both plasma LH and BtH activation.</jats:p

Mapping of serotype-specific, immunodominant epitopes in the NS-4 region of hepatitis C virus (HCV):use of type-specific peptides to serologically differentiate infections with HCV types 1, 2, and 3

The effect of sequence variability between different types of hepatitis C virus (HCV) on the antigenicity of the NS-4 protein was investigated by epitope mapping and by enzyme-linked immunosorbent assay with branched oligopeptides. Epitope mapping of the region between amino acid residues 1679 and 1768 in the HCV polyprotein revealed two major antigenic regions (1961 to 1708 and 1710 to 1728) that were recognized by antibody elicited upon natural infection of HCV. The antigenic regions were highly variable between variants of HCV, with only 50 to 60% amino acid sequence similarity between types 1, 2, and 3. Although limited serological cross-reactivity between HCV types was detected between peptides, particularly in the first antigenic region of NS-4, type-specific reactivity formed the principal component of the natural humoral immune response to NS-4. Type-specific antibody to particular HCV types was detected in 89% of the samples from anti-HCV-positive blood donors and correlated almost exactly with genotypic analysis of HCV sequences amplified from the samples by polymerase chain reaction. Whereas almost all blood donors appeared to be infected with a single virus type (97%), a higher proportion of samples (40%) from hemophiliacs infected from transfusion of non-heat-inactivated clotting factor contained antibody to two or even all three HCV types, providing evidence that long-term exposure may lead to multiple infection with different variants of HCV

Estimation of slow- and fast-cycling soil organic carbon pools from 6N HCI hydrolysis

Includes bibliographical references (pages 238-239).Acid hydrolysis is used to fractionate the soil organic carbon pool into relatively slow- and fast-cycling compartments on soils from Arizona, the Great Plains states and Michigan collected for carbon isotope tracer studies related to soil carbon sequestration, for studies of shifts in C3/C4 vegetation, and for "pre-bomb" soil-carbon inventories. Prior to hydrolysis, soil samples are first treated with cold 0.5-1N HCl to remove soil carbonates if necessary. Samples are then dispersed in a concentrated NaCI solution (p~1.2 g cm-3) and floated plant fragments are skimmed off the surface. After rinsing and drying, all remaining recognizable plant fragments are picked from the soil under 20x magnification. Plant-free soils, and hot, 6NHCl acid-hydrolysis residue and hydrolyzate fractions are analyzed for carbon content, δ 13C and 14C age, and the carbon distribution is verified within 1-2% by stable-carbon isotope mass balance. On average, the recalcitrant residue fraction is 1800 year older and 2.6‰ more 13C-depleted than total soil organic carbon. A test of hydrolysis with fresh plant fragments produced as much as 71-76% in the acid-hydrolysis residue pool. Thus, if plant fragments are not largely removed prior to hydrolysis, the residue fraction may date much younger than it actually is.Publisher version: https://journals.uair.arizona.edu/index.php/radiocarbon/article/view/1903/1904

Biological and molecular structure analyses of the controls on soil organic matter dynamics

Includes bibliographical references (page 170).The dynamics of soil organic carbon (SOC) are controlled by the interaction of biological, physical, and chemical parameters. These are best measured by a combination of techniques such as long-term field sites with a C3↔C4 plant switch. Acid hydrolysis and 14C- dating measure the mean residence time (MRT) of the resistant fraction. Long-term incubation allows the in situ biota to identify and decompose the labile SOC components. Statistical analysis (curve fitting) of the CO2 release curves, determines the pool size and of the two labile fractions (1). The effect of chemical structure is measured with pyrolysismolecular beam mass spectrometry (py-MBMS). The dynamics of charcoal, clay and silt are measured with both 13C and 14C

Carbon isotope ratios of Great Plains soils and in wheat-fallow systems

Includes bibliographical references (pages 1076-1077).The purposes of this study were to improve knowledge of regional vegetation patterns of C3 and C4 plants in the North American Great Plains and to use δ13C methodology and long-term research sites to determine contributions of small-grain crops to total soil organic carbon (SOC) now present. Archived and recent soil samples were used. Detailed soil sampling was in 1993 at long-term sites near Akron, CO, and Sidney, NE. After soil sieving, drying, and deliming, SOC and δ13C were determined using an automated C/N analyzer interfaced to an isotope-ratio mass spectrometer. Yield records from long-term experimental sites were used to estimate the amount of C3 plant residue C returned to the soil. Results from δ13C analyses of soils from near Waldheim, Saskatchewan, to Big Springs, TX, showed a strong north to south decrease in SOC derived from C3 plants and a corresponding increase from C4 plants. The δ13C analyses gave evidence that C3 plant residue C (possibly from shrubs) is increasing at the Big Springs, TX, and Lawton, OK, sites. Also, δ13C analyses of subsoil and topsoil layers shows evidence of a regional shift to more C3 species, possibly because of a cooler climate during the past few hundreds to thousands of years. Data from long-term research sites indicate that the efficiency of incorporation of small-grain crop residue C was about 5.4% during 84 year at Akron, CO, and about 10.5% during 20 year at Sidney, NE. The 14C age of the SOC at 0- to 10-cm depth was 193 year and at 30 to 45 cm was 4000 yr; 14C age of nonhydrolyzable C was 2000 and 7000 year for these same two respective depths. Natural partitioning of the 13C isotope by the photosynthetic pathways of C3 and C4 plants provides a potentially powerful tool to study SOC dynamics at both regional and local scales

The lavender plumage colour in Japanese quail is associated with a complex mutation in the region of MLPH that is related to differences in growth, feed consumption and body temperature

Background The lavender phenotype in quail is a dilution of both eumelanin and phaeomelanin in feathers that produces a blue-grey colour on a wild-type feather pattern background. It has been previously demonstrated by intergeneric hybridization that the lavender mutation in quail is homologous to the same phenotype in chicken, which is caused by a single base-pair change in exon 1 of MLPH. Results In this study, we have shown that a mutation of MLPH is also associated with feather colour dilution in quail, but that the mutational event is extremely different. In this species, the lavender phenotype is associated with a non-lethal complex mutation involving three consecutive overlapping chromosomal changes (two inversions and one deletion) that have consequences on the genomic organization of four genes (MLPH and the neighbouring PRLH, RAB17 and LRRFIP1). The deletion of PRLH has no effect on the level of circulating prolactin. Lavender birds have lighter body weight, lower body temperature and increased feed consumption and residual feed intake than wild-type plumage quail, indicating that this complex mutation is affecting the metabolism and the regulation of homeothermy. Conclusions An extensive overlapping chromosome rearrangement was associated with a non-pathological Mendelian trait and minor, non deleterious effects in the lavender Japanese quail which is a natural knockout for PRLH

10 simple rules to create a serious game, illustrated with examples from structural biology

Serious scientific games are games whose purpose is not only fun. In the field of science, the serious goals include crucial activities for scientists: outreach, teaching and research. The number of serious games is increasing rapidly, in particular citizen science games, games that allow people to produce and/or analyze scientific data. Interestingly, it is possible to build a set of rules providing a guideline to create or improve serious games. We present arguments gathered from our own experience ( Phylo , DocMolecules , HiRE-RNA contest and Pangu) as well as examples from the growing literature on scientific serious games

Using Probability Density Functions to Evaluate Models (PDFEM, v1.0) to compare a biogeochemical model with satellite-derived chlorophyll

Global biogeochemical ocean models are invaluable tools to examine how physical, chemical, and biological processes interact in the ocean. Satellite-derived ocean color properties, on the other hand, provide observations of the surface ocean, with unprecedented coverage and resolution. Advances in our understanding of marine ecosystems and biogeochemistry are strengthened by the combined use of these resources, together with sparse in situ data. Recent modeling advances allow the simulation of the spectral properties of phytoplankton and remote sensing reflectances, bringing model outputs closer to the kind of data that ocean color satellites can provide. However, comparisons between model outputs and analogous satellite products (e.g., chlorophyll a) remain problematic. Most evaluations are based on point-by-point comparisons in space and time, where spuriously large errors can occur from small spatial and temporal mismatches, whereas global statistics provide no information on how well a model resolves processes at regional scales. Here, we employ a unique suite of methodologies, the Probability Density Functions to Evaluate Models (PDFEM), which generate a robust comparison of these resources. The probability density functions of physical and biological properties of Longhurst's provinces are compared to evaluate how well a model resolves related processes. Differences in the distributions of chlorophyll a concentration (mg m−3) provide information on matches and mismatches between models and observations. In particular, mismatches help isolate regional sources of discrepancy, which can lead to improving both simulations and satellite algorithms. Furthermore, the use of radiative transfer in the model to mimic remotely sensed products facilitates model–observation comparisons of optical properties of the ocean.</p