Influence of convective transport on tropospheric ozone and its precursors in a chemistry-climate model

The impact of convection on tropospheric O₃ and its precursors has been examined in a coupled chemistry-climate model. There are two ways that convection affects O₃. First, convection affects O₃ by vertical mixing of O₃ itself. Convection lifts lower tropospheric air to regions where the O₃ lifetime is longer, whilst mass-balance subsidence mixes O₃-rich upper tropospheric (UT) air downwards to regions where the O₃ lifetime is shorter. This tends to decrease UT O₃ and the overall tropospheric column of O₃. Secondly, convection affects O₃ by vertical mixing of O₃ precursors. This affects O₃ chemical production and destruction. Convection transports isoprene and its degradation products to the UT where they interact with lightning NO_x to produce PAN, at the expense of NO_x. In our model, we find that convection reduces UT NO_x through this mechanism; convective down-mixing also flattens our imposed profile of lightning emissions, further reducing UT NO_x. Over tropical land, which has large lightning NO_x emissions in the UT, we find convective lofting of NO_x from surface sources appears relatively unimportant. Despite UT NO_x decreases, UT O₃ production increases as a result of UT HO_x increases driven by isoprene oxidation chemistry. However, UT O₃ tends to decrease, as the effect of convective overturning of O₃ itself dominates over changes in O₃ chemistry. Convective transport also reduces UT O₃ in the mid-latitudes resulting in a 13% decrease in the global tropospheric O₃ burden. These results contrast with an earlier study that uses a model of similar chemical complexity. Differences in convection schemes as well as chemistry schemes – in particular isoprene-driven changes are the most likely causes of such discrepancies. Further modelling studies are needed to constrain this uncertainty range

Histidine nutrition and genotype affect cataract development in Atlantic salmon, Salmo salar L.

The aim of this study was to investigate effects of dietary levels of histidine (His) and iron (Fe) on cataract development in two strains of Atlantic salmon monitored through parr-smolt transformation. Three experimental diets were fed: (i) a control diet (CD) with 110 mg kg-1 Fe and 11.7 g kg-1 His; (ii) CD supplemented with crystalline His to a level of 18 g kg-1 (HD); and (iii) HD with added iron up to 220 mg kg-1 (HID). A cross-over design, with two feeding periods was used. A 6-week freshwater (FW) period was followed by a 20-week period, of which the first three were in FW and the following 17 weeks in sea water (SW). Fish were sampled for weighing, cataract assessment and tissue analysis at five time points. Cataracts developed in all groups in SW, but scores were lower in those fed high His diets (P < 0.05). This effect was most pronounced when HD or HID was given in SW, but was also observed when these diets were given in FW only. Histidine supplementation had a positive effect on growth performance and feed conversion ratio (P < 0.05), whereas this did not occur when iron was added. Groups fed HD or HID had higher lens levels of His and N-acetyl histidine (NAH), the latter showing a marked increase post-smoltification (P < 0.05). The HD or HID groups also showed higher muscle concentrations of the His dipeptide anserine (P < 0.05). There was a strong genetic influence on cataract development in the CD groups (P < 0.001), not associated with tissue levels of His or NAH. The role of His and His-related compounds in cataractogenesis is discussed in relation to tissue buffering, osmoregulation and antioxidation

2MASS J06164006-6407194: The First Outer Halo L Subdwarf

We present the serendipitous discovery of an L subdwarf, 2MASS J06164006-6407194, in a search of the Two Micron All Sky Survey for T dwarfs. Its spectrum exhibits features indicative of both a cool and metal poor atmosphere including a heavily pressured-broadened K I resonant doublet, Cs I and Rb I lines, molecular bands of CaH, TiO, CrH, FeH, and H2O, and enhanced collision induced absorption of H2. We assign 2MASS 0616-6407 a spectral type of sdL5 based on a comparison of its red optical spectrum to that of near solar-metallicity L dwarfs. Its high proper motion (mu =1.405+-0.008 arcsec yr-1), large radial velocity (Vrad = 454+-15 km s-1), estimated uvw velocities (94, -573, 125) km s-1 and Galactic orbit with an apogalacticon at ~29 kpc are indicative of membership in the outer halo making 2MASS 0616-6407 the first ultracool member of this population.Comment: Accepted for publication in Ap

Cross-lingual document retrieval categorisation and navigation based on distributed services

The widespread use of the Internet across countries has increased the need for access to document collections that are often written in languages different from a user’s native language. In this paper we describe Clarity, a Cross Language Information Retrieval (CLIR) system for English, Finnish, Swedish, Latvian and Lithuanian. Clarity is a fully-fledged retrieval system that supports the user during the whole process of query formulation, text retrieval and document browsing. We address four of the major aspects of Clarity: (i) the user-driven methodology that formed the basis for the iterative design cycle and framework in the project, (ii) the system architecture that was developed to support the interaction and coordination of Clarity’s distributed services, (iii) the data resources and methods for query translation, and (iv) the support for Baltic languages. Clarity is an example of a distributed CLIR system built with minimal translation resources and, to our knowledge, the only such system that currently supports Baltic languages

GeoCLEF 2007: the CLEF 2007 cross-language geographic information retrieval track overview

GeoCLEF ran as a regular track for the second time within the Cross Language Evaluation Forum (CLEF) 2007. The purpose of GeoCLEF is to test and evaluate cross-language geographic information retrieval (GIR): retrieval for topics with a geographic specification. GeoCLEF 2007 consisted of two sub tasks. A search task ran for the third time and a query classification task was organized for the first. For the GeoCLEF 2007 search task, twenty-five search topics were defined by the organizing groups for searching English, German, Portuguese and Spanish document collections. All topics were translated into English, Indonesian, Portuguese, Spanish and German. Several topics in 2007 were geographically challenging. Thirteen groups submitted 108 runs. The groups used a variety of approaches. For the classification task, a query log from a search engine was provided and the groups needed to identify the queries with a geographic scope and the geographic components within the local queries

A large-scale proteogenomics study of apicomplexan pathogens-Toxoplasma gondii and Neospora caninum

Proteomics data can supplement genome annotation efforts, for example being used to confirm gene models or correct gene annotation errors. Here, we present a large‐scale proteogenomics study of two important apicomplexan pathogens: Toxoplasma gondii and Neospora caninum. We queried proteomics data against a panel of official and alternate gene models generated directly from RNASeq data, using several newly generated and some previously published MS datasets for this meta‐analysis. We identified a total of 201 996 and 39 953 peptide‐spectrum matches for T. gondii and N. caninum, respectively, at a 1% peptide FDR threshold. This equated to the identification of 30 494 distinct peptide sequences and 2921 proteins (matches to official gene models) for T. gondii, and 8911 peptides/1273 proteins for N. caninum following stringent protein‐level thresholding. We have also identified 289 and 140 loci for T. gondii and N. caninum, respectively, which mapped to RNA‐Seq‐derived gene models used in our analysis and apparently absent from the official annotation (release 10 from EuPathDB) of these species. We present several examples in our study where the RNA‐Seq evidence can help in correction of the current gene model and can help in discovery of potential new genes

EFFECTS OF JOINT PRODUCT MANAGEMENT STRATEGIES ON E.COLI 0157:H7 AND FEEDLOT PROFITS

The objective of this study was to determine the effect of Escherichia coli 0157:H7 on feedlot profits. Fecal samples from 711 feedlot pens in 73 feedlots in Nebraska, Kansas, Oklahoma, and Texas were tested for E. coli 0157:H7. Average daily gain and feed-to-gain ratios were computed for each feedlot pen, and managers from each feedlot provided information on various feedlot management practices. Cattle performance and E. coli 0157:H7 prevalence are both affected by feedlot management practices. The indirect effect of E. coli 0157:H7 on potential feedlot profits was determined by measuring the effects of management practices on E. coli 0157:H7 levels and cattle performance. Management practices that affect cattle performance were identified using ordinary least squares regressions. A negative binomial regression was used to identify management practices that affect E. coli 0157:H7 prevalence. Certain feedlot management practices were identified that have a joint impact on cattle performance and E. coli 0157:H7 prevalence. Using predatory insects to control flies, controlling for stray dogs, foxes, and coyotes in feed areas, removing manure from pens during finishing, and including tallow in the ration were management strategies associated with higher feedlot profits and lower E. coli 0157:H7 prevalence. Using mobile sprinklers for dust control and including alfalfa or sorghum hay or silage in the ration were associated with lower E. coli 0157:H7 prevalence and lower feedlot profits. Increasing days between cleaning water tanks and restricting movement of horses were associated with higher feedlot profits and higher E. coli 0157:H7 levels. Controlling for stray cats in feed areas and including liquid protein in the ration were associated with lower feedlot profits and higher E. coli 0157:H7 levels. These specific management strategies, which were not robust through a sensitivity analysis, should be interpreted with caution. The general categories of management strategies, however, were robust and consistent with past researchLivestock Production/Industries,

GeoCLEF 2006: the CLEF 2006 Ccross-language geographic information retrieval track overview

After being a pilot track in 2005, GeoCLEF advanced to be a regular track within CLEF 2006. The purpose of GeoCLEF is to test and evaluate cross-language geographic information retrieval (GIR): retrieval for topics with a geographic specification. For GeoCLEF 2006, twenty-five search topics were defined by the organizing groups for searching English, German, Portuguese and Spanish document collections. Topics were translated into English, German, Portuguese, Spanish and Japanese. Several topics in 2006 were significantly more geographically challenging than in 2005. Seventeen groups submitted 149 runs (up from eleven groups and 117 runs in GeoCLEF 2005). The groups used a variety of approaches, including geographic bounding boxes, named entity extraction and external knowledge bases (geographic thesauri and ontologies and gazetteers)