Gene Expression in Bovine Oocytes and Cumulus Cells After Meiotic Inhibition with the Cyclin-Dependent Kinase Inhibitor Butyrolactone I

Contents The aim of this study was to determine the effect of temporary inhibition of meiosis using the cyclin-dependent kinase inhibitor butyrolactone I (BLI) on gene expression in bovine oocytes and cumulus cells. Immature bovine cumulusoocyte complexes (COCs) were assigned to groups: (i) Control COCs collected immediately after recovery from the ovary or (ii) after in vitro maturation (IVM) for 24 h, (iii) Inhibited COCs collected 24 h after incubation with 100 mu m BLI or (iv) after meiotic inhibition for 24 h followed by IVM for a further 22 h. For mRNA relative abundance analysis, pools of 10 denuded oocytes and respective cumulus cells were collected. Transcripts related to cell cycle regulation and oocyte competence were evaluated in oocytes and cumulus cells by quantitative real-time PCR (qPCR). Most of the examined transcripts were downregulated (p < 0.05) after IVM in control and inhibited oocytes (19 of 35). Nine transcripts remained stable (p > 0.05) after IVM in control oocytes; only INHBA did not show this pattern in inhibited oocytes. Seven genes were upregulated after IVM in control oocytes (p < 0.05), and only PLAT, RBP1 and INHBB were not upregulated in inhibited oocytes after IVM. In cumulus cells, six genes were upregulated (p < 0.05) after IVM and eight were downregulated (p < 0.05). Cells from inhibited oocytes showed the same pattern of expression regarding maturation profile, but were affected by the temporary meiosis inhibition of the oocyte when the same maturation stages were compared between inhibited and control groups. In conclusion, changes in transcript abundance in oocytes and cumulus cells during maturation in vitro were mostly mirrored after meiotic inhibition followed by maturation.

The remarkable solar twin HIP 56948: a prime target in the quest for other Earths

Context. The Sun shows abundance anomalies relative to most solar twins. If the abundance peculiarities are due to the formation of inner rocky planets, that would mean that only a small fraction of solar type stars may host terrestrial planets. Aims. In this work we study HIP 56948, the best solar twin known to date, to determine with an unparalleled precision how similar it is to the Sun in its physical properties, chemical composition and planet architecture. We explore whether the abundances anomalies may be due to pollution from stellar ejecta or to terrestrial planet formation. Methods. We perform a differential abundance analysis (both in LTE and NLTE) using high resolution (R similar to 100 000) high S/N (600-650) Keck HIRES spectra of the Sun (as reflected from the asteroid Ceres) and HIP 56948. We use precise radial velocity data from the McDonald and Keck observatories to search for planets around this star. Results. We achieve a precision of sigma less than or similar to 0.003 dex for several elements. Including errors in stellar parameters the total uncertainty is as low as sigma similar or equal to 0.005 dex (1%), which is unprecedented in elemental abundance studies. The similarities between HIP 56948 and the Sun are astonishing. HIP 56948 is only 17 +/- 7 K hotter than the Sun, and log g, [Fe/H] and microturbulence velocity are only +0.02 +/- 0.02 dex, +0.02 +/- 0.01 dex and +0.01 +/- 0.01 km s(-1) higher than solar, respectively. Our precise stellar parameters and a differential isochrone analysis shows that HIP 56948 has a mass of 1.02 +/- 0.02 M-circle dot and that it is similar to 1 Gyr younger than the Sun, as constrained by isochrones, chromospheric activity, Li and rotation. Both stars show a chemical abundance pattern that differs from most solar twins, but the refractory elements (those with condensation temperature T-cond greater than or similar to 1000 K) are slightly (similar to 0.01 dex) more depleted in the Sun than in HIP 56948. The trend with T-cond in differential abundances (twins -HIP 56948) can be reproduced very well by adding similar to 3 M-circle plus of a mix of Earth and meteoritic material, to the convection zone of HIP 56948. The element-to-element scatter of the Earth/meteoritic mix for the case of hypothetical rocky planets around HIP 56948 is only 0.0047 dex. From our radial velocity monitoring we find no indications of giant planets interior to or within the habitable zone of HIP 56948. Conclusions. We conclude that HIP 56948 is an excellent candidate to host a planetary system like our own, including the possible presence of inner terrestrial planets. Its striking similarity to the Sun and its mature age makes HIP 56948 a prime target in the quest for other Earths and SETI endeavors.

Transiting exoplanets from the CoRoT space mission XXI. CoRoT-19b: a low density planet orbiting an old inactive F9V-star

Context. Observations of transiting extrasolar planets are of key importance to our understanding of planets because their mass, radius, and mass density can be determined. These measurements indicate that planets of similar mass can have very different radii. For low-density planets, it is generally assumed that they are inflated owing to their proximity to the host-star. To determine the causes of this inflation, it is necessary to obtain a statistically significant sample of planets with precisely measured masses and radii. Aims. The CoRoT space mission allows us to achieve a very high photometric accuracy. By combining CoRoT data with high-precision radial velocity measurements, we derive precise planetary radii and masses. We report the discovery of CoRoT-19b, a gas-giant planet transiting an old, inactive F9V-type star with a period of four days. Methods. After excluding alternative physical configurations mimicking a planetary transit signal, we determine the radius and mass of the planet by combining CoRoT photometry with high-resolution spectroscopy obtained with the echelle spectrographs SOPHIE, HARPS, FIES, and SANDIFORD. To improve the precision of its ephemeris and the epoch, we observed additional transits with the TRAPPIST and Euler telescopes. Using HARPS spectra obtained during the transit, we then determine the projected angle between the spin of the star and the orbit of the planet. Results. We find that the host star of CoRoT-19b is an inactive F9V-type star close to the end of its main-sequence life. The host star has a mass M-* = 1.21 +/- 0.05 M-circle dot and radius R-* = 1.65 +/- 0.04 R-circle dot. The planet has a mass of M-P = 1.11 +/- 0.06 M-Jup and radius of R-P = 1.29 +/- 0.03 R-Jup. The resulting bulk density is only rho = 0.71 +/- 0.06 g cm (3), which is much lower than that for Jupiter. Conclusions. The exoplanet CoRoT-19b is an example of a giant planet of almost the same mass as Jupiter but a approximate to 30% larger radius.

Land use change to perennial energy crops in Northern Italy: Effects on soil organic carbon sequestration and distribution, soil enzyme activities and microbial communities.

Studies on soil organic carbon (SOC) sequestration in perennial energy crops are available for North-Central Europe, while there is insufficient information for Southern Europe. This research was conducted in the Po Valley, a Mediterranean-temperate zone characterised by low SOC levels, due to intensive management. The aim was to assess the factors influencing SOC sequestration and its distribution through depth and within soil fractions, after a 9-year old conversion from two annual systems to Miscanthus (Miscanthus × giganteus) and giant reed (Arundo donax). The 13C natural abundance was used to evaluate the amount of SOC in annual and perennial species, and determine the percentage of carbon derived from perennial crops. SOC was significantly higher under perennial species, especially in the topsoil (0-0.15 m). After 9 years, the amount of C derived from Miscanthus was 18.7 Mg ha-1, mostly stored at 0-0.15 m, whereas the amount of C derived from giant reed was 34.7 Mg ha-1, evenly distributed through layers. Physical soil fractionation was combined with 13C abundance analysis. C derived from perennial crops was mainly found in macroaggregates. Under giant reed, more newly derived-carbon was stored in microaggregates and mineral fraction than under Miscanthus. A molecular approach based on denaturing gradient gel electrophoresis (DGGE) allowed to evaluate changes on microbial community, after the introduction of perennial crops. Functional aspects were investigated by determining relevant soil enzymes (β-glucosidase, urease, alkaline phosphatase). Perennial crops positively stimulated these enzymes, especially in the topsoil. DGGE profiles revealed that community richness was higher in perennial crops; Shannon index of diversity was influenced only by depth. In conclusion, Miscanthus and giant reed represent a sustainable choice for the recovery of soils exhausted by intensive management, also in Mediterranean conditions and this is relevant mainly because this geographical area is notoriously characterised by a rapid turnover of SOC.

Chemically tagging the Hyades Supercluster. A homogeneous sample of F6-K4 kinematically selected northern stars

Stellar kinematic groups are kinematical coherent groups of stars that might have a common origin. These groups are dispersed throughout the Galaxy over time by the tidal effects of both Galactic rotation and disc heating, although their chemical content remains unchanged. The aim of chemical tagging is to establish that the abundances of every element in the analysis are homogeneus among the members. We study the case of the Hyades Supercluster to compile a reliable list of members (FGK stars) based on our chemical tagging analysis. For a total of 61 stars from the Hyades Supercluster, stellar atmospheric parameters (T_eff, log g, ξ, and [Fe/H]) are determined using our code called StePar, which is based on the sensitivity to the stellar atmospheric parameters of the iron EWs measured in the spectra. We derive the chemical abundances of 20 elements and find that their [X/Fe] ratios are consistent with Galactic abundance trends reported in previous studies. The chemical tagging method is applied with a carefully developed differential abundance analysis of each candidate member of the Hyades Supercluster, using a well-known member of the Hyades cluster as a reference (vB 153). We find that only 28 stars (26 dwarfs and 2 giants) are members, i.e. that 46% of our candidates are members based on the differential abundance analysis. This result confirms that the Hyades Supercluster cannot originate solely from the Hyades cluster.

Avaliação do potencial de Tillandsia recurvata (L.) L., Bromeliaceae, como bioindicadora da poluição atmosférica urbana

Air pollution can threat the environment and public health, and is assess by pollutant ́s concentration measurements in order to verify whether the limits set by environmental agencies are being respected. However, these measures do not indicate immediately the impacts to living beings. To faced this problem, plants are been investigated as potential bioindicators of air pollution and, among them, stand out bromeliads Tillandsia genus which colonize various substrates,. obtaining water and nutrients from the atmosphere directly. In this context, this research assessed the potential of epiphytic bromeliad Tillandsia recurvata (L.) L. found in urbanized areas of the city of Curitiba - PR as a bioindicator of urban air pollution. According to vehicle traffic, five sample points were selected and classified. Points P1 and P2 were classified as high-traffic vehicle due presenting trucks and urban transport; point P3 was classified as moderate traffic due the predominance of private vehicles and urban transport; and points P4 and P5 were classified as low-traffic, presenting circulation of private vehicles only. There were analyzed the abundance of T. recurvata, morphophysiological parameters (leaf area, leaf specific area, sclerophylly index, percentage dry weight / fresh weight, chlorophyll (a + b), analysis of structural mesophyll organization) and the heavy metals accumulation (Fe, Cd, Cr, Cu, Pb and Zn). The abundance analysis and the results obtained for metals analysis were correlated with the intensity of vehicular traffic, directing the sampling points P1 > P2 = P3 > P4 = P5. This result demonstrate that the abundance of T. recurvata is greater in urban air pollution impacted areas, thus indicating that T. recurvata absorbs and accumulates metals and can be used in biomonitoring of urban air pollution in areas impacted by vehicular traffic. Morphophysiological parameters analyzed shows that the internal plant ́s structure is not significantly impacted by urban air pollution due plant ́s adptations. The presence of absorbing scales, the CAM metabolism pathway and it ́s store water ability, among other features, demonstrate their potential as bio-indicator in urban areas, especially regarding heavy metals accumulation .

Improved statistical analysis of low abundance phenomena in bimodal bacterial populations.

Accurate detection of subpopulation size determinations in bimodal populations remains problematic yet it represents a powerful way by which cellular heterogeneity under different environmental conditions can be compared. So far, most studies have relied on qualitative descriptions of population distribution patterns, on population-independent descriptors, or on arbitrary placement of thresholds distinguishing biological ON from OFF states. We found that all these methods fall short of accurately describing small population sizes in bimodal populations. Here we propose a simple, statistics-based method for the analysis of small subpopulation sizes for use in the free software environment R and test this method on real as well as simulated data. Four so-called population splitting methods were designed with different algorithms that can estimate subpopulation sizes from bimodal populations. All four methods proved more precise than previously used methods when analyzing subpopulation sizes of transfer competent cells arising in populations of the bacterium Pseudomonas knackmussii B13. The methods' resolving powers were further explored by bootstrapping and simulations. Two of the methods were not severely limited by the proportions of subpopulations they could estimate correctly, but the two others only allowed accurate subpopulation quantification when this amounted to less than 25% of the total population. In contrast, only one method was still sufficiently accurate with subpopulations smaller than 1% of the total population. This study proposes a number of rational approximations to quantifying small subpopulations and offers an easy-to-use protocol for their implementation in the open source statistical software environment R.

Distribution, Abundance and Molecular Analysis of Genus Barbadocladius Cranston & Krosch (Diptera, Chironomidae) in Tropical, High Altitude Andean Streams and Rivers

The distribution of the genus Barbadocladius Cranston & Krosch (Diptera: Chironomidae), previously reported from Chile to Bolivia, has extended northwards. Larvae, pupae and pupal exuviae of this genus have been found in the high mountain tropical streams of Peru to 9°22′56″, but are restricted to very high altitude streams (altitudes over 3,278 m asl) compared to the lower altitude streams (below 1,100 m asl) in which the genus is reported in Chile and Argentina. Based on morphological studies, both described species in the genus, Barbadocladius andinus Cranston & Krosch and Barbadocladius limay Cranston & Krosch, have been found in Peru as pupae or pupal exuviae. Morphological analysis of the larvae and pupae revealed no differences between the two described species from Patagonia and Peru, which are of similar size and with a similar armament of hooklets and spines in pupal tergites and sternites. However, molecular analysis of larvae and pupae revealed that in Peru, there are at least two different evolutionary lines, one distributed widely and another restricted to one site. Phylogenetic analysis (using cox1 mitochondrial sequences) of all available sequences of Barbadocladius shows that the Chilean and Argentinean material differs from that of Peru. Therefore, a total of four molecular segregates are identified, although morphologically, neither larvae nor the pupae may be differentiated.

Comparison of pollinators and natural enemies: a meta-analysis of landscape and local effects on abundance and richness in crops

To manage agroecosystems for multiple ecosystem services, we need to know whether the management of one service has positive, negative, or no effects on other services. We do not yet have data on the interactions between pollination and pest-control services. However, we do have data on the distributions of pollinators and natural enemies in agroecosystems. Therefore, we compared these two groups of ecosystem service providers, to see if the management of farms and agricultural landscapes might have similar effects on the abundance and richness of both. In a meta-analysis, we compared 46 studies that sampled bees, predatory beetles, parasitic wasps, and spiders in fields, orchards, or vineyards of food crops. These studies used the proximity or proportion of non-crop or natural habitats in the landscapes surrounding these crops (a measure of landscape complexity), or the proximity or diversity of non-crop plants in the margins of these crops (a measure of local complexity), to explain the abundance or richness of these beneficial arthropods. Compositional complexity at both landscape and local scales had positive effects on both pollinators and natural enemies, but different effects on different taxa. Effects on bees and spiders were significantly positive, but effects on parasitoids and predatory beetles (mostly Carabidae and Staphylinidae) were inconclusive. Landscape complexity had significantly stronger effects on bees than it did on predatory beetles and significantly stronger effects in non-woody rather than in woody crops. Effects on richness were significantly stronger than effects on abundance, but possibly only for spiders. This abundance-richness difference might be caused by differences between generalists and specialists, or between arthropods that depend on non-crop habitats (ecotone species and dispersers) and those that do not (cultural species). We call this the ‘specialist-generalist’ or ‘cultural difference’ mechanism. If complexity has stronger effects on richness than abundance, it might have stronger effects on the stability than the magnitude of these arthropod-mediated ecosystem services. We conclude that some pollinators and natural enemies seem to have compatible responses to complexity, and it might be possible to manage agroecosystems for the benefit of both. However, too few studies have compared the two, and so we cannot yet conclude that there are no negative interactions between pollinators and natural enemies, and no trade-offs between pollination and pest-control services. Therefore, we suggest a framework for future research to bridge these gaps in our knowledge.

Comparative proteomic analysis of lung tissue from guinea pigs with leptospiral pulmonary haemorrhage syndrome (LPHS) reveals a decrease in abundance of host proteins involved in cytoskeletal and cellular organization

Leptospiral pulmonary haemorrhage syndrome (LPHS) is a particularly severe form of leptospirosis. LPHS is increasingly recognized in both humans and animals and is characterized by rapidly progressive intra-alveolar haemorrhage leading to high mortality. The pathogenic mechanisms of LPHS are poorly understood which hampers the application of effective treatment regimes. In this study a 2-D guinea pig proteome lung map was created and used to investigate the pathogenic mechanisms of LPHS. Comparison of lung proteomes from infected and non-infected guinea pigs via differential in-gel electrophoresis revealed highly significant differences in abundance of proteins contained in 130 spots. Acute phase proteins were the largest functional group amongst proteins with increased abundance in LPHS lung tissue, and likely reflect a local and/or systemic host response to infection. The observed decrease in abundance of proteins involved in cytoskeletal and cellular organization in LPHS lung tissue further suggests that infection with pathogenic Leptospira induces changes in the abundance of host proteins involved in cellular architecture and adhesion contributing to the dramatically increased alveolar septal wall permeability seen in LPHS. BIOLOGICAL SIGNIFICANCE The recent completion of the complete genome sequence of the guinea pig (Cavia porcellus) provides innovative opportunities to apply proteomic technologies to an important animal model of disease. In this study, the comparative proteomic analysis of lung tissue from experimentally infected guinea pigs with leptospiral pulmonary haemorrhage syndrome (LPHS) revealed a decrease in abundance of proteins involved in cellular architecture and adhesion, suggesting that loss or down-regulation of cytoskeletal and adhesion molecules plays an important role in the pathogenesis of LPHS. A publically available guinea pig lung proteome map was constructed to facilitate future pulmonary proteomics in this species.

Mesopelagic fish abundance and particle size spectrum analysis from Maria S. Merian cruise MSM26, spring 2013

One of the goals of EU BASIN is to understand variability in production across the Atlantic and the impact of this variability on higher trophic levels. One aspect of these investigations is to examine the biomes defined by Longhurst (2007). These biomes are largely based on productivity measured with remote sensing. During MSM 26, mesopelagic fish and size-spectrum data were collected to test the biome classifications of the north Atlantic. In most marine systems, the size-spectrum is a decay function with more, smaller organisms and fewer larger organisms. The intercept of the size-spectrum has been linked to overall productivity while the slope represents the "rate of decay" of this productivity (Zhou 2006, doi:10.1093/plankt/fbi119). A Laser In-Situ Scattering Transmissometer was used to collect size-spectrum data and net collections were made to capture mesopelagic fish. The relationship among the mesopelagic fish size and abundance distributions will be compared to the estimates of production from the size-spectrum data to evaluate the biomes of the stations occupied during MSM 26.

Abundance of organic-walled dinoflagellate cysts and geochemical analysis of sediment core GeoB5546-2

NW African climate shows orbital and millenial-scale variations, which are tightly connected to changes in marine productivity. We present an organic-walled dinoflagellate cyst (dinocyst) record from a sediment core off Cape Yubi at about 27°N in the Canary Basin covering the time period from 47 to 3ka before present (BP). The dinocyst record reflects differences in upwelling intensity and seasonality as well as the influence of fluvial input. Sea-level changes play an important role for the upwelling pattern and productivity signals at the core site. Within the studied time interval, four main phases were distinguished. (1) From 45 to 24ka BP, when sea-level was mostly about 75m lower than today, high relative abundances of cysts of heterotrophic taxa point to enhanced upwelling activity, especially during Heinrich Events, while relatively low dinocyst accumulation rates indicate that filament activity at the core location was strongly reduced. (2) At sea-level lowstand during the LGM to H1, dinocyst accumulation rates suggest that local filament formation was even more inhibited. (3) From the early Holocene to about 8ka BP, extraordinary high accumulation rates of most dinocyst species, especially of Lingulodinium machaerophorum, suggest that nutrient supply via fluvial input increased and rising sea-level promoted filament formation. At the same time, the upwelling season prolongated. (4) A relative increase in cysts of photoautotrophic taxa from about 8ka BP on indicates more stratified conditions while fluvial input decreased. Our study shows that productivity records can be very sensitive to regional features. From the dinocyst data we infer that marine surface productivity off Cape Yubi during glacial times was within the scale of modern times but extremely enhanced during deglaciation.

Abundance of mesozooplankton during the long-tern mesozooplankton analysis in Sevastopol Bay from 1976 to 2003

The present dataset includes results of analysis of 227 zooplankton samples taken in and off the Sevastopol Bay in the Black Sea in 1976, 1979-1980, 1989-1990, 1995-1996 and 2002-2003. Exact coordinates for stations 1, 4, 5 and 6 are unknown and were calculated using Google-earth program. Data on Ctenophora Mnemiopsis leidyi and Beroe ovata are not included. Juday net: Vertical tows of a Juday net, with mouth area 0.1 m**2, mesh size 150µm. Tows were performed at layers. Towing speed: about 0.5 m/s. Samples were preserved by a 4% formaldehyde sea water buffered solution. Sampling volume was estimated by multiplying the mouth area with the wire length. The collected material was analysed using the method of portions (Yashnov, 1939). Samples were brought to volume of 50 - 100 ml depending upon zooplankton density and mixed intensively until all organisms were distributed randomly in the sample volume. After that 1 ml of sample was taken by calibrated Stempel-pipette. This operation was produced twice. If divergence between two examined subsamples was more than 30% one more subsample was examined. Large (> 1 mm body length) and not abundant species were calculated in 1/2, 1/4, 1/8, 1/16 or 1/32 part of sample. Counting and measuring of organisms were made in the Bogorov chamber under the stereomicroscope to the lowest taxon possible. Number of organisms per sample was calculated as simple average of two subsamples meanings multiplied on subsample volume. Total abundance of mesozooplankton was calculated as sum of taxon-specific abundances and total abundance of Copepods was calculated as sum of copepods taxon-specific abundances.