Effect of feed restriction on muscle fibre characteristics and meat quality traits in pigs

ArticleThe aim of this study was to evaluate the effect of feed restriction on muscle fibre composition and meat quality traits in pigs. Forty crossbred pigs (Pietrain × Large WhiteSire) × (Landrace × Large WhiteDam) were divided into two feeding groups: ad libitum (AL) and restricted (R1). The effects of feed restriction on muscle fibre characteristics of the musculus longissimus lumborum et thoracis (MLLT) and meat quality traits were evaluated. Muscle fibres were stained and classified as fibre types I, IIA, and IIB. For each muscle fibre type, the fibre density, fibre cross-section area (CSA), and fibre proportion were determined. Fibres IIB were divided into small- (diameter 86 μm) fibres. The AL group had significantly lower (P < 0.05) percentage area of IIB fibres and lower (P < 0.01) CSA of IIB fibres than did the R1 group. The R1 group had significantly greater content of large-sized IIB fibres and smaller content of medium-sized IIB fibres than did the AL group (P < 0.05). The group fed ad libitum had greater backfat thickness and smaller lean meat content and tended to have better meat quality traits compared to the restricted group. The results of this study show that strong feed restriction had a negative effect on muscle fibre composition, especially on the amount of large-sized fibres IIB, which are associated with poor meat quality

Fatty acid composition in pork fat: De-novo synthesis, fatty acid sources and influencing factors – a review

ArticleFats are among the basic nutrients the human organism needs as a source of energy, as well as to grow and regenerate cells, tissues, and organs. Particularly animal fats, with their higher proportion of saturated fatty acids and low content of n-3 fatty acids, are often seen by the public as relatively undesirable food components. Fatty acid (FA) composition of pork is affected by many factors: genotype, breeding, gender and feeding methods. Numerous research teams, therefore, have searched for means of effectively manipulating the chemical composition of animal fats. This paper reviews existing knowledge and means of effectively influencing the fatty acid composition in pig fat, which is a significant component of human food in European countries due to their high consumption of pork. The findings of various authors demonstrate that not only altering of fatty acids sources in animal diets but a range of other factors as well can significantly influence the composition of fatty acids in pig fat and consequently pork quality

ParkDB: a Parkinson's disease gene expression database

Parkinson's disease (PD) is a common, adult-onset, neuro-degenerative disorder characterized by the degeneration of cardinal motor signs mainly due to the loss of dopaminergic neurons in the substantia nigra. To date, researchers still have limited understanding of the key molecular events that provoke neurodegeneration in this disease. Here, we present ParkDB, the first queryable database dedicated to gene expression in PD. ParkDB contains a complete set of re-analyzed, curated and annotated microarray datasets. This resource enables scientists to identify and compare expression signatures involved in PD and dopaminergic neuron differentiation under different biological conditions and across species. Database URL: http://www2.cancer.ucl.ac.uk/Parkinson_Db2

Determination of intracellular glutathione and glutathione disulfide using high performance liquid chromatography with acidic potassium permanganate chemiluminescence detection

Measurement of glutathione (GSH) and glutathione disulfide (GSSG) is a crucial tool to assess cellular redox state. Herein we report a direct approach to determine intracellular GSH based on a rapid chromatographic separation coupled with acidic potassium permanganate chemiluminescence detection, which was extended to GSSG by incorporating thiol blocking and disulfide bond reduction. Importantly, this simple procedure avoids derivatisation of GSH (thus minimising auto-oxidation) and overcomes problems encountered when deriving the concentration of GSSG from &lsquo;total GSH&rsquo;. The linear range and limit of detection for both analytes were 7.5 &times; 10&minus;7 to 1 &times; 10&minus;5 M, and 5 &times; 10&minus;7 M, respectively. GSH and GSSG were determined in cultured muscle cells treated for 24 h with glucose oxidase (0, 15, 30, 100, 250 and 500 mU mL&minus;1), which exposed them to a continuous source of reactive oxygen species (ROS). Both analyte concentrations were greater in myotubes treated with 100 or 250 mU mL&minus;1 glucose oxidase (compared to untreated controls), but were significantly lower in myotubes treated with 500 mU mL&minus;1 (p &lt; 0.05), which was rationalised by considering measurements of H2O2 and cell viability. However, the GSH/GSSG ratio in myotubes treated with 100, 250 and 500 mU mL&minus;1 glucose oxidase exhibited a dose-dependent decrease that reflected the increase in intracellular ROS.<br /

The IKMC web portal: a central point of entry to data and resources from the International Knockout Mouse Consortium

The International Knockout Mouse Consortium (IKMC) aims to mutate all protein-coding genes in the mouse using a combination of gene targeting and gene trapping in mouse embryonic stem (ES) cells and to make the generated resources readily available to the research community. The IKMC database and web portal (www.knockoutmouse.org) serves as the central public web site for IKMC data and facilitates the coordination and prioritization of work within the consortium. Researchers can access up-to-date information on IKMC knockout vectors, ES cells and mice for specific genes, and follow links to the respective repositories from which corresponding IKMC products can be ordered. Researchers can also use the web site to nominate genes for targeting, or to indicate that targeting of a gene should receive high priority. The IKMC database provides data to, and features extensive interconnections with, other community databases

Genome-wide mapping of Myc binding and gene regulation in serum-stimulated fibroblasts

The transition from quiescence to proliferation is a key regulatory step that can be induced by serum stimulation in cultured fibroblasts. The transcription factor Myc is directly induced by serum mitogens and drives a secondary gene expression program that remains largely unknown. Using mRNA profiling, we identify close to 300 Myc-dependent serum response (MDSR) genes, which are induced by serum in a Myc-dependent manner in mouse fibroblasts. Mapping of genomic Myc-binding sites by ChIP-seq technology revealed that most MDSR genes were directly targeted by Myc, but represented a minor fraction (5.5%) of all Myc-bound promoters (which were 22.4% of all promoters). Other target loci were either induced by serum in a Myc-independent manner, were not significantly regulated or were negatively regulated. MDSR gene products were involved in a variety of processes, including nucleotide biosynthesis, ribosome biogenesis, DNA replication and RNA control. Of the 29 MDSR genes targeted by RNA interference, three showed a requirement for cell-cycle entry upon serum stimulation and 11 for long-term proliferation and/or survival. Hence, proper coordination of key regulatory and biosynthetic pathways following mitogenic stimulation relies upon the concerted regulation of multiple Myc-dependent genes

The Bioperl toolkit: Perl modules for the life sciences

The Bioperl project is an international open-source collaboration of biologists, bioinformaticians, and computer scientists that has evolved over the past 7 yr into the most comprehensive library of Perl modules available for managing and manipulating life-science information. Bioperl provides an easy-to-use, stable, and consistent programming interface for bioinformatics application programmers. The Bioperl modules have been successfully and repeatedly used to reduce otherwise complex tasks to only a few lines of code. The Bioperl object model has been proven to be flexible enough to support enterprise-level applications such as EnsEMBL, while maintaining an easy learning curve for novice Perl programmers. Bioperl is capable of executing analyses and processing results from programs such as BLAST, ClustalW, or the EMBOSS suite. Interoperation with modules written in Python and Java is supported through the evolving BioCORBA bridge. Bioperl provides access to data stores such as GenBank and SwissProt via a flexible series of sequence input/output modules, and to the emerging common sequence data storage format of the Open Bioinformatics Database Access project. This study describes the overall architecture of the toolkit, the problem domains that it addresses, and gives specific examples of how the toolkit can be used to solve common life-sciences problems. We conclude with a discussion of how the open-source nature of the project has contributed to the development effort

Genome-wide signatures of convergent evolution in echolocating mammals

Evolution is typically thought to proceed through divergence of genes, proteins, and ultimately phenotypes(1-3). However, similar traits might also evolve convergently in unrelated taxa due to similar selection pressures(4,5). Adaptive phenotypic convergence is widespread in nature, and recent results from a handful of genes have suggested that this phenomenon is powerful enough to also drive recurrent evolution at the sequence level(6-9). Where homoplasious substitutions do occur these have long been considered the result of neutral processes. However, recent studies have demonstrated that adaptive convergent sequence evolution can be detected in vertebrates using statistical methods that model parallel evolution(9,10) although the extent to which sequence convergence between genera occurs across genomes is unknown. Here we analyse genomic sequence data in mammals that have independently evolved echolocation and show for the first time that convergence is not a rare process restricted to a handful of loci but is instead widespread, continuously distributed and commonly driven by natural selection acting on a small number of sites per locus. Systematic analyses of convergent sequence evolution in 805,053 amino acids within 2,326 orthologous coding gene sequences compared across 22 mammals (including four new bat genomes) revealed signatures consistent with convergence in nearly 200 loci. Strong and significant support for convergence among bats and the dolphin was seen in numerous genes linked to hearing or deafness, consistent with an involvement in echolocation. Surprisingly we also found convergence in many genes linked to vision: the convergent signal of many sensory genes was robustly correlated with the strength of natural selection. This first attempt to detect genome-wide convergent sequence evolution across divergent taxa reveals the phenomenon to be much more pervasive than previously recognised

21nm x-ray laser Thomson scattering of laser-heated exploding foil plasmas

Recent experiments were carried out on the Prague Asterix Laser System (PALS) towards the demonstration of a soft x-ray laser Thomson scattering diagnostic for a laser-produced exploding foil. The Thomson probe utilized the Ne-like zinc x-ray laser which was double-passed to deliver {approx}1 mJ of focused energy at 21.2 nm wavelength and lasting {approx}100 ps. The plasma under study was heated single-sided using a Gaussian 300-ps pulse of 438-nm light (3{omega} of the PALS iodine laser) at laser irradiances of 10{sup 13}-10{sup 14} W cm{sup -2}. Electron densities of 10{sup 20}-10{sup 22} cm{sup -3} and electron temperatures from 200 to 500 eV were probed at 0.5 or 1 ns after the peak of the heating pulse during the foil plasma expansion. A flat-field 1200 line mm{sup -1} variable-spaced grating spectrometer with a cooled charge-coupled device readout viewed the plasma in the forward direction at 30{sup o} with respect to the x-ray laser probe. We show results from plasmas generated from {approx}1 {micro}m thick targets of Al and polypropylene (C{sub 3}H{sub 6}). Numerical simulations of the Thomson scattering cross-sections will be presented. These simulations show electron peaks in addition to a narrow ion feature due to collective (incoherent) Thomson scattering. The electron features are shifted from the frequency of the scattered radiation approximately by the electron plasma frequency {+-}{omega}{sub pe} and scale as n{sub e}{sup 1/2}