Extrachromosomal microDNAs and chromosomal microdeletions in normal tissues

We have identified tens of thousands of short extrachromosomal circular DNAs (microDNA) in mouse tissues as well as mouse and human cell lines. These microDNAs are 200 to 400 base pairs long, are derived from unique nonrepetitive sequence, and are enriched in the 5'-untranslated regions of genes, exons, and CpG islands. Chromosomal loci that are enriched sources of microDNA in the adult brain are somatically mosaic for microdeletions that appear to arise from the excision of microDNAs. Germline microdeletions identified by the "Thousand Genomes" project may also arise from the excision of microDNAs in the germline lineage. We have thus identified a previously unknown DNA entity in mammalian cells and provide evidence that their generation leaves behind deletions in different genomic loci.     

Plasma concentrations of chloramphenicol after subcutaneous administration to koalas (Phascolarctos cinereus) with chlamydiosis

Nine mature koalas with chlamydiosis, typically keratoconjunctivitis and/or urogenital tract infection, were treated with daily subcutaneous injections of chloramphenicol at 60 mg/kg for 45 days (five koalas), or for a shorter duration (four koalas). All koalas were initially positive for Chlamydia pecorum as determined by real-time polymerase chain reaction (qPCR). Plasma chloramphenicol concentrations were determined at t = 0, 1, 2, 4, 8, and 24 h after the day 1 injection (nine koalas) and after the day 15 injection (seven koalas). Chloramphenicol reached a median (and range) maximum plasma concentration of 3.03 (1.32-5.03 μg/mL) at 4 (1-8 h) after the day 1 injection and 4.82 (1.97-27.55 μg/mL) at 1 (1-2 h) after day 15. The median (and range) of AUC(0-24) on day 1 and day 15 were 48.14 (22.37-81.14 μg·h/mL) and 50.83 (28.43-123.99 μg·h/mL), respectively. The area under the moment curve (AUMC)(0-24) median (and range) for day 1 and day 15 were 530.03 (233.05-798.97 h) and 458.15 (291.72-1093.58 h), respectively. Swabs were positive for chlamydial DNA pretreatment, and all koalas except one, produced swabs negative for chlamydial DNA during treatment and which remained so, for 2-63 days after treatment, however whether chloramphenicol treatment prevented long-term recrudescence of infection was not established. At this dose and dosing frequency, chloramphenicol appeared to control mild chlamydial infection and prevent shedding, but severe urogenital disease did not appear to respond to chloramphenicol at this dosage regime. For koalas affected by severe chlamydiosis, antibiotics alone are not sufficient to effect a cure, possibly because of structural or metabolic changes associated with chronic disease and inflammation.     

Dog-associated risk factors for human plague

Plague is a rare but often fatal zoonosis endemic to the western United States. Previous studies have identified contact with pets as a potential risk factor for infection. We conducted a matched case-control study to better define the risks associated with pets at both the household and individual levels. Using a written questionnaire, we surveyed nine surviving plague patients, 12 household members of these patients, and 30 age- and neighbourhood-matched controls about household and individual exposures. Overall, 79% of households had at least one dog, 59% had at least one cat and 33% used flea control, with no significant differences between case and control households. Four (44%) case households reported having a sick dog versus no (0%) control households [matched odds ratio, (mOR) 18.5, 95% confidence interval (CI) 2.3-infinity], and four (44%) patients reported sleeping in the same bed with a pet dog versus three (10%) controls (mOR 5.7, 95% CI 1.0-31.6). Within case households with multiple members, two (40%) of five patients slept with their dogs versus none (0%) of 12 healthy family members (P=0.13). The exposures to cats were not significant. Sleeping in the same bed as a pet dog remained significantly associated with infection in a multivariate logistic regression model (P=0.046). Our findings suggest that dogs may facilitate the transfer of fleas into the home and that activities with close extended contacts with dogs may increase the risk of plague infection.     

Evaluation of calving seasons and marketing strategies in Northern Great Plains beef enterprises: I. Cow-calf systems

A bioeconomic computer model was used to evaluate alternate calving seasons in a cow-calf enterprise under range conditions representative of the Northern Great Plains. The simulated ranch utilized a rotational breeding system based on Hereford and Angus and had a fixed forage base (4,500 animal unit months of native range, 520 t of grass hay, and 183 t of alfalfa hay). Calving seasons studied were spring (SP, beginning March 15), summer (SU, beginning May 15), and fall (FA, beginning August 15). Weaning dates were October 31, December 15, and February 1, for SP, SU, and FA. The SP system was also simulated with a 5% increase in calf mortality (SP-IM), and SU with early weaning on October 31 (SU-EW). Herd size for the fixed resource was 509, 523, 519, 560, and 609 cows exposed per year for SP, SP-IM, SU, SU-EW, and FA, respectively. Corresponding values for weight weaned per cow exposed were 206, 186, 193, 153, and 145 kg. Steer calves, nonreplacement heifer calves, and cull cows were sold at the time of weaning. Quarterly cattle and feed prices used were representative of the peak, descending, valley, and ascending phases of the 1990s cattle cycle adjusted for inflation. Estimates of ranch gross margin (gross returns minus variable costs) were greatest for SP, followed by SP-IM, SU, SU-EW, and FA, and the ranks were consistent across phases of the cattle cycle. Differences between ranch gross margin for SP-IM and SU were small. In beef enterprises representative of the Northern Great Plains, with a restricted grazing season, limited access to low-cost, high-quality grazeable forage, and with calves sold at weaning, switching from early spring to a summer or fall calving date is not expected to improve profitability. If delaying calving improves calf survival, then calving in early summer may be a competitive choice.     

The theropod ancestry of birds: new evidence from the late cretaceous of madagascar

A partial skeleton of a primitive bird, Rahona ostromi, gen. et sp. nov., has been discovered from the Late Cretaceous of Madagascar. This specimen, although exhibiting avian features such as a reversed hallux and ulnar papillae, retains characteristics that indicate a theropod ancestry, including a pubic foot and hyposphene-hypantra vertebral articulations. Rahona has a robust, hyperextendible second digit on the hind foot that terminates in a sicklelike claw, a unique characteristic of the theropod groups Troodontidae and Dromaeosauridae. A phylogenetic analysis places Rahona with Archaeopteryx, making Rahona one of the most primitive birds yet discovered.     

Unconditional quantum teleportation

Quantum teleportation of optical coherent states was demonstrated experimentally using squeezed-state entanglement. The quantum nature of the achieved teleportation was verified by the experimentally determined fidelity Fexp = 0.58 +/- 0.02, which describes the match between input and output states. A fidelity greater than 0.5 is not possible for coherent states without the use of entanglement. This is the first realization of unconditional quantum teleportation where every state entering the device is actually teleported.     

Sustainable grassland systems: a modelling perspective based on the North Wyke Farm Platform

The North Wyke Farm Platform (NWFP) provides data from the field‐ to the farm‐scale, enabling the research community to address key issues in sustainable agriculture better and to test models that are capable of simulating soil, plant and animal processes involved in the systems. The tested models can then be used to simulate how agro‐ecosystems will respond to changes in the environment and management. In this study, we used baseline datasets generated from the NWFP to validate the Soil‐Plant‐Atmosphere Continuum System (SPACSYS) model in relation to the dynamics of soil water content, water loss from runoff and forage biomass removal. The validated model, together with future climate scenarios for the 2020s, 2050s and 2080s (from the International Panel on Climate Change (IPCC) Special Report on Emissions Scenarios (SRES): medium (A1B) and large (A1F1) emission scenarios), were used to simulate the long‐term responses of the system with three contrasting treatments on the NWFP. Simulation results demonstrated that the SPACSYS model could estimate reliably the dynamics of soil water content, water loss from runoff and drainage, and cut biomass for a permanent sward. The treatments responded in different ways under the climate change scenarios. More carbon (C) is fixed and respired by the swards treated with an increased use of legumes, whereas less C was lost through soil respiration with the planned reseeding. The deep‐rooting grass in the reseeding treatment reduced N losses through leaching, runoff and gaseous emissions, and water loss from runoff compared with the other two treatments.     

Role of live microbial feed supplements with reference to anaerobic fungi in ruminant productivity: A review

To keep the concept of a safe food supply to the consumers, animal feed industries world over are showing an increasing interest in the direct-fed microbials(DFM) for improved animal performance in terms of growth or productivity. This becomes all the more essential in a situation, where a number of the residues of antibiotics and/or other growth stimulants reach in milk and meat with a number of associated potential risks for the consumers. Hence, in the absence of growth stimulants, a positive manipulation of the rumen microbial ecosystem to enhance the feedstuff utilization for improved production efficiency by ruminants has become of much interest to the researchers and entrepreneurs. A few genera of live microbes(i.e., bacteria, fungi and yeasts in different types of formulations from paste to powder) are infrequently used as DFM for the domestic ruminants. These DFM products are live microbial feed supplements containing naturally occurring microbes in the rumen. Among different DFM possibilities, anaerobic rumen fungi(ARF) based additives have been found to improve ruminant productivity consistently during feeding trials. Administration of ARF during the few trials conducted, led to the increased weight gain, milk production, and total tract digestibility of feed components in ruminants. Anaerobic fungi in the rumen display very strong cell-wall degrading cellulolytic and xylanolytic activities through rhizoid development, resulting in the physical disruption of feed structure paving the way for bacterial action. Significant improvements in the fiber digestibility were found to coincide with increases in ARF in the rumen indicating their role. Most of the researches based on DFM have indicated a positive response in nutrient digestion and methane reducing potential during in vivo and/or in vitro supplementation of ARF as DFM. Therefore, DFM especially ARF will gain popularity but it is necessary that all the strains are thoroughly studied for their beneficial properties to have a confirmed ‘generally regarded as safe' status for ruminants.