Parallel patterns of evolution in the genomes and transcriptomes of humans and chimpanzees

The determination of the chimpanzee genome sequence provides a means to study both structural and functional aspects of the evolution of the human genome. Here we compare humans and chimpanzees with respect to differences in expression levels and protein-coding sequences for genes active in brain, heart, liver, kidney, and testis. We find that the patterns of differences in gene expression and gene sequences are markedly similar. In particular, there is a gradation of selective constraints among the tissues so that the brain shows the least differences between the species whereas liver shows the most. Furthermore, expression levels as well as amino acid sequences of genes active in more tissues have diverged less between the species than have genes active in fewer tissues. In general, these patterns are consistent with a model of neutral evolution with negative selection. However, for X-chromosomal genes expressed in testis, patterns suggestive of positive selection on sequence changes as well as expression changes are seen. Furthermore, although genes expressed in the brain have changed less than have genes expressed in other tissues, in agreement with previous work we find that genes active in brain have accumulated more changes on the human than on the chimpanzee lineage.     

Comment on "Nonreciprocal light propagation in a silicon photonic circuit"

We show that the structure demonstrated by Feng et al. (Reports, 5 August 2011, p. 729) cannot enable optical isolation because it possesses a symmetric scattering matrix. Moreover, one cannot construct an optical isolator by incorporating this structure into any system as long as the system is linear and time-independent and is described by materials with a scalar dielectric function.     

Bacterial community composition of sediments from a milkfish Chanos chanos Forsskål farm

Bacterial communities in sediments underneath milkfish cages and adjacent off‐cage areas in Bolinao, Lingayen Gulf, West Philippine Sea were characterized using PCR‐denaturing gradient gel electrophoresis to assess influence of the fish farming to the sediments. The sediments in the fish cage (FC) area showed anoxic conditions [redox potential of ?165 to ?213 mV and acid‐volatile sulphide‐sulphur (AVS‐S) of 0.55–1.88 mg g^?1 (dry weight)] compared to the relatively oxic off‐cage area [redox potential of 72–81 mV and AVS‐S of 0.09–0.14 mg g^?1 (dry weight)]. The composition of the microbial populations revealed influence of the fish feed sedimentation with higher dominance of putative sulphate‐reducing bacteria (SRB) in the FC area. Compositions of the bacterial taxa showed dominance of the Bacteroidetes group and Deltaproteobacteria. The results suggest that the fish feeds created a new suitable environment, in which reductive microorganisms such as SRB, ferric‐ion‐reducing bacteria and nitrate‐reducing bacteria can thrive. Organic load from the feed and quantity of its leftover constituents may be the key factors that influence the structure of the bacterial community in the sediments of the milkfish farms.     

Ecological and eco‐social models for the introduction of the abalone Haliotis discus hannai into benthic systems of north‐central Chile: sustainability assessment

• 1. Loop models of ecological and socio‐economic systems were developed to analyse and predict the impact of a possible accidental introduction (escapes) of the abalone Haliotis discus hannai into a benthic community of north‐central Chile.
• 2. Although the ‘new’ ecological system resulting from a successful invasion of abalone would be locally stable, the establishment of a self‐enhanced dynamic of recruits would transform this into an unstable system.
• 3. The harvest of the kelp, Lessonia trabeculata and other macroalgae is not recommended because this destabilizes the system. The harvest of abalone adults is only sustainable if they do not exert a negative effect upon other native invertebrates.
• 4. The eco‐social model showed three important results: (1) if the variables ‘Price’ and ‘Farming’ are in expansion and stationary dynamics, then the models were found unstable; (2) a self‐enhanced dynamic of abalone recruits tends toward instability; and (3) the harvest of the kelp L. trabeculata and other macroalgae would be non‐sustainable.
• 5. Based on our results, the sustainable development of extensive farming of H. discus hannai in the sea would be not reached. If it is done, an intensive monitoring of the community after introduction into the system is strongly recommended. Likewise, the farming of macroalgal species (source of food for abalone) should be promoted in order to avoid harvesting of macroalgae from natural systems.

Copyright © 2006 John Wiley & Sons, Ltd.     

Demonstration of the articular cartilage of the canine ulnar trochlear notch using high-field magnetic resonance imaging

The articular cartilage covering the ulnar trochlear notch (UTN) of both elbow joints from 25 adult canine cadavers was demonstrated by the use of high-field magnetic resonance imaging (MRI) with a fat-suppressed, three-dimensional, spoiled gradient echo sequence. The dogs used for this study were divided into five groups: giant, large, mid-sized, small, and chondrodystrophic breeds. The distribution of articular cartilage of the UTN was assessed on MR images. The joints were then opened, and the distribution of the articular cartilage of the UTN was verified. In 29/50 joints, there was good agreement between gross findings of the distribution of the articular cartilage of the UTN and MRI interpretation. Reasons for the poor results in small and chondrodystrophic breeds were decreased thickness of the articular cartilage, small size of the articular surface and of its structural features, and the frequent inability to visualize the joint space.     

Cardiopulmonary arrest and resuscitation following an extradural injection in a normovolemic dog

Objective – To describe general anesthesia and successful resuscitation of a dog developing asystole and apnea during extradural injection of local anesthetic and an opioid. Case Summary – A Beagle with a ruptured cranial cruciate was premedicated with acepromazine and methadone. Anesthesia was induced with propofol and, after endotracheal intubation, maintained using isoflurane in oxygen. During extradural injection of a mixture of lidocaine, bupivacaine, and morphine the dog developed apnea and asystole. Cardiopulmonary cerebral resuscitation was started promptly and the dog was successfully resuscitated. New Information Provided – Asystole and apnea are possible serious side effects of extradural anesthesia in dogs. With adequate monitoring and early detection successful resuscitation is possible.     

Effect of amino acid deficiency on precaecal amino acid digestibility in broiler chickens

In this study, we determined whether deficient dietary amino acid (AA) concentrations influence the precaecal (pc) AA digestibility when determined using the regression approach. We mixed two basal diets. Basal diet 1 was deficient in essential AAs, whereas adequate AA concentrations were ensured in basal diet 2 by adding free AAs. Rapeseed cake and full‐fat soya beans as test ingredients were included in the basal diets at levels of 100 and 200, and 150 and 300 g/kg, respectively, at the expense of maize starch. Each diet was tested with six replicates of 10 broiler chickens each. The feed intake of the chickens that were fed diets based on basal diet 2 was similar, whereas the feed intake of the chickens that were fed diets based on basal diet 1 differed considerably. The numerical differences in pc AA digestibility determined with basal diet 1 or 2 ranged from 2.6 percentage points to 20.8 percentage points in rapeseed cake and from 0.5 percentage points to 15.2 percentage points in soya beans. Across all measured AAs, the average differences were 10.1 percentage points and 5.4 percentage points in rapeseed cake and soya beans, respectively. The differences in the estimated pc AA digestibility between the basal diets were probably caused by different basal endogenous AA losses in the digesta between treatments as a consequence of different feed intake. Adequate AA concentrations and test ingredient levels that are specifically adjusted to avoid a negative effect on feed intake are recommended for future studies.     

Non-Destructive Evaluation of Edible Coatings Effects on Keeping Quality of European Plums (<Emphasis Type="Italic">Prunus domestica</Emphasis> L.) by Laser Light Backscattering Imaging

Fruits of European plum (Prunus domestica L.) show high rates of transpiration. Consequently, they are highly perishable fruit. In the present study, the potential of an edible coating (Versasheen®-based with sorbitol as plasticizer) to improve storage life and keeping quality was evaluated on fruit of the plum cultivars ‘Jojo’ and ‘Tophit plus’. Plums were picked at commercial harvest date and stored at 2?±?0.5?°C (90?±?2% rh) for up to 28?d plus 2?d at 20?°C to simulate shelf life. Every seventh day, plums were analysed for transpiration, colour changes and laser light backscattering imaging (LLBI) at a wavelength of 785?nm to non-destructively investigate variations in quality properties of plums. Finally, fruit flesh firmness, soluble solids content, and titratable acidity were determined destructively. Results indicated that coating of fruit of both cultivars increased their surface resistance against water vapour transfer resulting in lower transpiration rates and thus lower mass losses compared to controls. Consequently, coating of fruit considerably delayed the decrease in flesh firmness. Moreover, edible coating retarded the increase of FWHM785 in coated plums. In this context, FWHM785 proved as a rapid and non-destructive tool to monitor changes in mechanical properties in heavily coloured plums. Results highlight that edible coatings successfully extend post-harvest life of plums.     

Polychlorinated biphenyls (PCBs) in bulk soil and particle size separates of soils in a rural community

In a rural community (Stephanskirchen, Southern Germany) situated near a waste incineration plant six A horizons were sampled to determine 14 polychlorinated biphenyls (PCBs) in bulk soil and particle size separates (clay, silt, fine and coarse sand) and to test the suitability of alkaline saponification for PCB extraction. The PCB concentrations were higher in alkaline saponification extracts than in Soxhlet extracts. However, the extraction efficiency of up to fourfold chlorinated PCBs was lower and more than sevenfold chlorinated PCBs were destroyed. Nevertheless, alkaline saponification was suitable to determine the indicator congeners 28, 52, 101, 138, 152, and 180. The sum of the PCB concentrations ranged from 8.4 to 59.5 μg kg^?1 which was as high as in soils of big cities. However, the concentrations did not reach the threshold value for agricultural purposes of 200 μg kg^?1 as proposed in literature for the sum of the six indicator congeners. The hexachlorinated PCBs 138 and 153 were the most abundant (together > 50% in all samples) whereas PCB 1 could not be detected in any sample. On the average, PCB concentrations increased as particle size decreased. When normalized to C_org, however, the fine sand fraction had the highest PCB concentrations. A slight decrease of lower chlorinated PCBs as particle size decreased indicated an increasing state of degradation. The PCB compositions in the emissions of a comparable waste incineration plant (Bamberg, Bavaria) and in Stephanskirchen soils differed markedly. Therefore, we did not get any indications that waste incineration was a main source of PCBs in the examined soils. Instead, higher chlorinated technical PCB mixtures such as Clophen A 60 or Aroclor 1260 may be the most important sources.