ICTV Virus Taxonomy Profile: Picornaviridae.

The family Picornaviridae comprises small non-enveloped viruses with RNA genomes of 6.7 to 10.1 kb, and contains >30 genera and >75 species. Most of the known picornaviruses infect mammals and birds, but some have also been detected in reptiles, amphibians and fish. Many picornaviruses are important human and veterinary pathogens and may cause diseases of the central nervous system, heart, liver, skin, gastrointestinal tract or upper respiratory tract. Most picornaviruses are transmitted by the faecal-oral or respiratory routes. This is a summary of the International Committee on Taxonomy of Viruses (ICTV) Report on the taxonomy of the Picornaviridae, which is available at www.ictv.global/report/picornaviridae.

Evaluation of optimal water fluoridation on the incidence and skeletal distribution of naturally arising osteosarcoma in pet dogs.

Experimental toxicological studies in laboratory animals and epidemiological human studies have reported a possible association between water fluoridation and osteosarcoma (OSA). To further explore this possibility, a case-control study of individual dogs evaluated by the UC Davis Veterinary Medical Teaching Hospital was conducted using ecologic data on water fluoridation based on the owner's residence. The case group included 161 dogs with OSA diagnosed between 2008-2012. Two cancer control groups included dogs diagnosed with lymphoma (LSA) or hemangiosarcoma (HSA) during the same period (n = 134 and n = 145, respectively). Dogs with OSA were not significantly more likely to live in an area with optimized fluoride in the water than dogs with LSA or HSA. Additional analyses within OSA patients also revealed no significant differences in age, or skeletal distribution of OSA cases relative to fluoride status. Taken together, these analyses do not support the hypothesis that optimal fluoridation of drinking water contributes to naturally occurring OSA in dogs.

Ratification vote on taxonomic proposals to the International Committee on Taxonomy of Viruses (2015).

Changes to virus taxonomy approved and ratified by the International Committee on Taxonomy of Viruses in February 2015 are listed.

Ratification vote on taxonomic proposals to the International Committee on Taxonomy of Viruses (2014).

Changes to virus taxonomy approved by a vote of all ICTV members in February-March 2014 are reported.

Identifying sources of groundwater nitrate contamination in a large alluvial groundwater basin with highly diversified intensive agricultural production.

Groundwater quality is a concern in alluvial aquifers underlying agricultural areas worldwide. Nitrate from land applied fertilizers or from animal waste can leach to groundwater and contaminate drinking water resources. The San Joaquin Valley, California, is an example of an agricultural landscape with a large diversity of field, vegetable, tree, nut, and citrus crops, but also confined animal feeding operations (CAFOs, here mostly dairies) that generate, store, and land apply large amounts of liquid manure. As in other such regions around the world, the rural population in the San Joaquin Valley relies almost exclusively on shallow domestic wells (≤150 m deep), of which many have been affected by nitrate. Variability in crops, soil type, and depth to groundwater contribute to large variability in nitrate occurrence across the underlying aquifer system. The role of these factors in controlling groundwater nitrate contamination levels is examined. Two hundred domestic wells were sampled in two sub-regions of the San Joaquin Valley, Stanislaus and Merced (Stan/Mer) and Tulare and Kings (Tul/Kings) Counties. Forty six percent of well water samples in Tul/Kings and 42% of well water samples in Stan/Mer exceeded the MCL for nitrate (10mg/L NO3-N). For statistical analysis of nitrate contamination, 78 crop and landuse types were considered by grouping them into ten categories (CAFO, citrus, deciduous fruits and nuts, field crops, forage, native, pasture, truck crops, urban, and vineyards). Vadose zone thickness, soil type, well construction information, well proximity to dairies, and dominant landuse near the well were considered. In the Stan/Mer area, elevated nitrate levels in domestic wells most strongly correlate with the combination of very shallow (≤21 m) water table and the presence of either CAFO derived animal waste applications or deciduous fruit and nut crops (synthetic fertilizer applications). In Tulare County, statistical data indicate that elevated nitrate levels in domestic well water are most strongly associated with citrus orchards when located in areas with a very shallow (≤21 m) water table. Kings County had relatively few nitrate MCL exceedances in domestic wells, probably due to the deeper water table in Kings County.

Comparison of ultrasonography, radiography and a single computed tomography slice for the identification of fluid within the tympanic bulla of rabbit cadavers.

Evaluation of the tympanic bulla (TB) in cases of otitis media in the rabbit can be a diagnostic challenge, although a feature often associated with the condition is the accumulation of fluid or material within the TB. Randomly selected TB from 40 rabbit cadavers were filled with a water-based, water-soluble jelly lubricant. A dorsoventral radiograph and single computed tomography (CT) slice were taken followed by an ultrasound (US) examination. Image interpretation was performed by blinded operators. The content of each TB was determined (fluid or gas) using each technique and the cadavers were frozen and sectioned for confirmation. CT was the most accurate diagnostic method, but US produced better results than radiography. Given the advantages of US over the other imaging techniques, the results suggest that further work is warranted to determine US applications in the evaluation of the rabbit TB and clinical cases of otitis media in this species.

Radiographic anatomy of the rabbit skull, with particular reference to the tympanic bulla and temporomandibular joint. Part 2: Ventral and dorsal rotational angles.

This is the second part of a two-part study to document rabbit skull radiographic anatomy with particular reference to the temporomandibular joint (TMJ) and tympanic bulla (TB), and identify views that allowed their optimal visualisation. Equipment was used that allowed repeatable positioning of skulls at known rotational angles in ventral (rostrocaudal to ventrodorsal) with the mouth closed and open, and dorsal (rostrocaudal to dorsoventral position) directions. The views were repeated with lead markers attached to anatomical features and cadaver heads. The TBs were visible between 40° and 90° from rostrocaudal in both directions, but opening the mouth did not improve visualisation. The TMJs were visible until 40° in a ventral direction, but only 20° in a dorsal one. Opening the mouth slightly altered the regions of the joint being skylined, but did not otherwise enhance imaging of this region.

Radiographic anatomy of the rabbit skull with particular reference to the tympanic bulla and temporomandibular joint: Part 1: Lateral and long axis rotational angles.

Radiography is frequently used to investigate otitis media and dental disease in rabbits, although there are few detailed reports regarding the radiographic anatomy of the rabbit skull. The aim of this study was to document rabbit skull radiographic anatomy, with particular reference to the tympanic bulla (TB) and temporomandibular joint (TMJ), and to identify views that allowed optimal assessment of these areas. Equipment was used that allowed repeatable positioning of skulls at known rotational angles in lateral (lateral to rostrocaudal) and long axis (lateral to ventrodorsal) directions. The views were repeated with lead markers attached to anatomical features and cadaver heads. The TB could be best examined between 30° and 60° in both planes. The TMJ was best visualised between 70° and 90° in a lateral direction, particularly along a true rostrocaudal plane, but could not be imaged well at any of the long axis rotational angles. Similar images were obtained using cadavers.

Applications of ultrasonography in the reproductive management of Dux magnus gentis venteris saginati.

Dux magnus gentis venteris saginati is considered to be a Scottish delicacy; however, depleting wild stocks have resulted in attempts to farm them. Selective breeding has been successful in modifying behaviour, increasing body length, reducing hair coat and improving fank (litter) size. However, there are still significant problems associated with the terrain in which they are farmed. This article describes the use of ultrasonography in the reproductive management of this species and the introduction of new genetic material in an attempt to address these problems, with the aim of improving welfare and productivity.

Anatomy and ultrasonographic appearance of the tympanic bulla and associated structures in the rabbit.

Otitis media is a relatively common condition in the rabbit although it can be difficult to evaluate clinically. Diagnostic imaging of the rabbit has traditionally involved radiography and there are few reports regarding the use of ultrasound. The aim of this study was to determine if the tympanic bulla (TB) and associated structures could be evaluated in the rabbit using currently available ultrasound equipment. The normal anatomy of the region was established using gross dissection and emascerated specimens and compared with the dog and cat. Ten New Zealand white rabbit cadavers were examined using two ultrasound machines and four transducers from a variety of locations. A 12 MHz linear transducer was found to be most appropriate. From a lateral approach the external ear canal could be visualized to the level of the external acoustic meatus while the TB itself could only be visualized from a ventral approach. The jugular and mastoid processes in the rabbit are very prominent and interfered with imaging of the TB from all approaches. Water-soluble lubricant introduced into the TB could be identified through the ventral bone wall of the TB and allowed the lumen and far wall to be visualised. Further work is required to determine whether ultrasound examination of the TB can be performed in live rabbits and to evaluate its benefits in the evaluation of clinical cases of otitis media.

Comparison of ultrasonography, radiography and a single computed tomography slice for fluid identification within the feline tympanic bulla.

Evaluation of the tympanic bulla (TB) in cases of acute feline otitis media can be a diagnostic challenge, although a feature often associated with this condition is the accumulation of fluid or material within the middle ear cavity. A technique is reported allowing optimum imaging of the feline TB using ultrasound (US) and recording of the appearance of gas and fluid-filled TB. A random number of bullae in 42 feline cadavers were filled with lubricant and rostroventral-caudodorsal oblique radiographs, single slice computed tomography (CT) images and US images were created and interpreted by blinded operators. The content (fluid or gas) of each TB was determined using each technique and the cadavers were then frozen and sectioned for confirmation. CT remained the most accurate diagnostic method, but US produced better results than radiology. Given the advantages of US over other imaging techniques, these results suggest that further work is warranted to determine applications of this modality in the evaluation of clinical cases of feline otitis media.

Development, advances and applications of diagnostic ultrasound in animals.

Ultrasound has many industrial applications but it was first introduced as a medical diagnostic aid in the 1940s with its first veterinary application, the detection of ovine pregnancy, being reported in 1966. Since then, improvements in equipment quality combined with an increased awareness of the benefits of ultrasound as an imaging technique have led to its widespread use in the veterinary field. Recent advances in computer technology have significantly influenced equipment design and the miniaturization of transducers allows intra-operative and intra-vascular applications. Software advances have improved the ability to manipulate and process data, leading to an increased amount of information being obtained from each examination and the advent of 'remote diagnosis'. Ultrasound guided interventional techniques can now be used for diagnostic or therapeutic purposes. Many of these developments have been introduced by equipment manufacturers but have found specific applications in the veterinary field. Ultrasound is currently employed in a very diverse range of situations, not just as a diagnostic tool in the routine clinical workup of a range of species, but also for disease screening, conservation projects, commercial services, herd management and clinical research.

Role of the cytoplasmic domain of the beta-subunit of integrin alpha(v)beta6 in infection by foot-and-mouth disease virus.

Field isolates of foot-and-mouth disease virus (FMDV) are believed to use RGD-dependent integrins as cellular receptors in vivo. Using SW480 cell transfectants, we have recently established that one such integrin, alpha(v)beta6, functions as a receptor for FMDV. This integrin was shown to function as a receptor for virus attachment. However, it was not known if the alpha(v)beta6 receptor itself participated in the events that follow virus binding to the host cell. In the present study, we investigated the effects of various deletion mutations in the beta6 cytoplasmic domain on infection. Our results show that although loss of the beta6 cytoplasmic domain has little effect on virus binding, this domain is essential for infection, indicating a critical role in postattachment events. The importance of endosomal acidification in alpha(v)beta6-mediated infection was confirmed by experiments showing that infection could be blocked by concanamycin A, a specific inhibitor of the vacuolar ATPase.

A randomised prospective study to evaluate a rapid HIV-antibody assay in the management of cases of percutaneous exposure amongst health care workers.

A rapid start of post-exposure prophylaxis with an antiretroviral regime is recommended after percutaneous exposure to blood from an HIV-positive source. Since the HIV-antibody status of the source is usually not known at the time of injury, antiretroviral treatment is started pending the results of HIV testing of the source. A randomised prospective study was designed to compare the use of a rapid-screening assay in the management of cases of percutaneous exposure with the conventional procedure. Prior to the comparative study, the accuracy of a rapid-screening assay performed by non-laboratory trained personnel was evaluated. 123 blinded HIV-positive and HIV-negative samples were correctly identified. In a randomised comparison with the conventional procedure, the application of the rapid-screening assay resulted in a significant reduction of psychological stress, drug use and cost. The estimated net benefit per case was CHF 93.-(62 US$). This study strongly supports the use of the rapid-screening assay in the management of post-exposure prophylaxis for HIV after percutaneous exposure in health care workers.

The reduced expression of surrogate light chains in B cell precursors from senescent BALB/c mice is associated with decreased E2A proteins.

Senescent mice exhibit decreased numbers of pre-B cells in the bone marrow. Herein, we show that the molecules, lambda5 and VpreB, which comprise the surrogate light chain component of the pre-B cell receptor, are reduced in pro-B/early pre-B cells derived in vitro from the bone marrow of 18-27 months old BALB/c mice after stimulation with IL-7. Both lambda5 and VpreB expression were decreased at the mRNA level as indicated by semi-quantitative RT-PCR; this suggests that the reduced surrogate light chains seen in senescent B cell precursors result from dysfunctional transcriptional regulation. The transcription of surrogate light chains is regulated, in part, by E2A (E47) gene products. Levels of E2A proteins, including E47, were decreased in senescent B cell precursors by up to 90%. Reduced E2A (E47) expression and subsequent reduced transcription of the surrogate light chain components lambda5 and VpreB may, in part, explain the diminished production of B lineage cells observed in senescence.

Functional discovery via a compendium of expression profiles.

Ascertaining the impact of uncharacterized perturbations on the cell is a fundamental problem in biology. Here, we describe how a single assay can be used to monitor hundreds of different cellular functions simultaneously. We constructed a reference database or "compendium" of expression profiles corresponding to 300 diverse mutations and chemical treatments in S. cerevisiae, and we show that the cellular pathways affected can be determined by pattern matching, even among very subtle profiles. The utility of this approach is validated by examining profiles caused by deletions of uncharacterized genes: we identify and experimentally confirm that eight uncharacterized open reading frames encode proteins required for sterol metabolism, cell wall function, mitochondrial respiration, or protein synthesis. We also show that the compendium can be used to characterize pharmacological perturbations by identifying a novel target of the commonly used drug dyclonine.