Bayesian Calibration of Blue Crab (<Emphasis Type="Italic">Callinectes sapidus</Emphasis>) Abundance Indices Based on Probability Surveys

Abundance and standard error estimates in surveys of fishery resources typically employ classical design-based approaches, ignoring the influences of non-design factors such as varying catchability. We developed a Bayesian approach for estimating abundance and associated errors in a fishery survey by incorporating sampling and non-sampling variabilities. First, a zero-inflated spatial model was used to quantify variance components due to non-sampling factors; second, the model was used to calibrate the estimated abundance index and its variance using pseudo empirical likelihood. The approach was applied to a winter dredge survey conducted to estimate the abundance of blue crabs (Callinectes sapidus) in the Chesapeake Bay. We explored the properties of the calibration estimators through a limited simulation study. The variance estimator calibrated on posterior sample performed well, and the mean estimator had comparable performance to design-based approach with slightly higher bias and lower (about 15% reduction) mean squared error. The results suggest that application of this approach can improve estimation of abundance indices using data from design-based fishery surveys.     

Genitourinary and pulmonary multidrug resistant Mycobacterium tuberculosis infection in an Asian elephant (Elephas maximus)

A female Asian elephant (Elephas maximus) developed vaginal and trunk discharge. Cultures were positive for pan-susceptible Mycobacterium tuberculosis. Isoniazid and pyrazinamide were given rectally and monitored by serum levels. After being trained at 10 mo to accept oral dosing, treatment was changed and rifampin was added. Oral medications were administered for another 10 mo. A year after completion of therapy, the vaginal discharge increased and cultures yielded M. tuberculosis, resistant to isoniazid and rifampin. Treatment with oral ethambutol, pyrazinamide, and enrofloxacin and intramuscular amikacin was initiated. Although followup cultures became negative, adverse reactions to medications precluded treatment completion. Due to public health concerns related to multidrug resistant M. tuberculosis (MDR-TB), the elephant was euthanized. Postmortem smears from the lung, peribronchial, and abdominal lymph nodes yielded acid-fast bacteria, although cultures were negative. This case highlights important considerations in the treatment of M. tuberculosis in animals and the need for a consistent approach to diagnosis, treatment, and follow-up.     

Administering an appeasing substance to beef calves at weaning to optimize productive and health responses during a 42-d preconditioning program

This experiment evaluated the impacts of administering a bovine appeasing substance (BAS) to beef calves at weaning on their performance, physiological responses, and behavior during a 42-d preconditioning program. Eighty calves (40 heifers and 40 steers; 90% British × 10% Nellore) were weaned at 233 ± 2 d of age (day 0); ranked by sex, weaning age, and body weight (BW); and assigned to receive BAS (IRSEA Group, Quartier Salignan, France; n = 40) or placebo (diethylene glycol monoethyl ether; CON; n = 40). Treatments (5 mL) were topically applied to the nuchal skin area of each animal following dam separation. Within treatment, calves were allocated to one of eight drylot pens (four pens per treatment; pen being the experimental unit) and received a free-choice total mixed ration (TMR) from day 0 to 42, intake of which was assessed daily. Live behavior observations were conducted on days 1, 2, 4, 8, 16, and 32. Temperament was assessed and blood samples were collected via jugular venipuncture on days −21, 0, 3, 7, 14, 28, and 42. Hair samples were collected from the tail switch on days 0, 14, 28, and 42. Calves were vaccinated against bovine respiratory disease viruses on days −21 and 0. Average daily gain from day 0 to 42 did not differ between treatments (P = 0.57) but was greater (P = 0.05) in BAS vs. CON calves from day 0 to 28. Intake of TMR was greater (P = 0.05) during the first week for BAS vs. CON calves (treatment × week; P = 0.08). The mean proportion of calves feeding simultaneously and performance of social and play behaviors were greater (P ≤ 0.05) for BAS vs. CON calves. Escape attempts were greater (P < 0.01) for BAS vs. CON calves on day 1 (treatment × day; P = 0.03). Exit velocity was greater (P = 0.04) for CON vs. BAS calves on day 14 and tended (P = 0.10) to be greater for CON vs. BAS calves on day 7 (treatment × day; P = 0.03). Mean plasma concentrations of haptoglobin were greater (P = 0.02) in CON vs. BAS calves. Hair cortisol concentrations were greater (P = 0.05) in CON vs. BAS calves on day 14 (treatment × day; P = 0.03). Mean serum concentrations of antibodies against bovine viral diarrhea virus were greater (P = 0.02) in BAS vs. CON calves. Collectively, BAS administration to beef calves at weaning alleviated stress-induced physiological reactions, improved temperament evaluated via chute exit velocity, enhanced humoral immunity acquired from vaccination, and appeared to have accelerated adaptation to novel management scheme and environment.     

Aubian wheat mosaic virus, a new soil-borne wheat virus emerging in France

The properties of Aubian wheat mosaic virus (AWMV), a new soil-borne wheat virus in France, were investigated. Symptoms include foliar mosaic and severe stunting of winter wheat. The vector of the disease is unknown but the plants infected carry Polymyxa graminis in the roots. AWMV was transmitted mechanically to wheat and to two dicotyledoneous species: Lactuca sativa and Vicia faba. This virus was transmitted by seed to three winter wheat cultivars tested. Purified preparations contained rod-shaped particles with a variable length of 150–700 nm. Certain particles are very long and appear flexible. Antiserum raised against AWMV reacted specifically with AWMV in both indirect and direct enzyme-linked immunosorbent assays (ELISA). The incidence of AWMV in 26 winter wheat cultivars was investigated in the field during the growing season of 1999–2000. AWMV was detected in roots and shoots of all cultivars regardless of the symptoms. Twelve virus species belonging to the genera Benyvirus, Bymovirus, Furovirus, Pecluvirus and Pomovirus did not react with the AWMV antisera. A new tubular virus described in winter wheat in Bedfordshire in England reacted strongly with AWMV in ELISA. It is concluded that AWMV and probably the Bedford-virus constitute a previously undescribed tubular virus biologically and serologically distinct from other soil-borne viruses of wheat.     

A Comparative Study of Serum Biochemistry,Metabolome and Microbiome Parameters of Clinically Healthy,Normal Weight,Overweight, and Obese Companion Dogs

The aim of this study was to compare fecal microbiome, plasma, fecal and urine metabolomes, and serum biochemistry of adult companion dogs according to body condition scores. Blood, serum/plasma, urine, and fecal samples were collected from 66 clinically healthy, adult companion dogs of either normal weight (NW), overweight (OW), or obese dogs (OB). analyses included fecal microbiome analyses via 16S ribosomal RNA gene amplicon; sequencing, nontargeted plasma, fecal, and urine metabolomics using liquid chromatography/gas chromatography-mass; spectrometry, and serum biochemistry for each dog. Few significant differences in serum biochemistry and fecal microbiome Operational Taxonomic Unit (OTU) were found between weight groups and there was high OTU variation between individual dogs. NW dogs had higher relative abundance of the genus Eubacterium (log-fold change 4.3, adjusted P value?=?.003) and lower relative abundance of the family Bifidobacteriaceae (log-fold change ?3.6, adjusted P value?=?.02) compared to OB dogs. The microbiome of NW dogs had higher OTU richness compared with OB dogs. Metabolome analysis showed 185 plasma, 37 fecal, and 45 urine metabolites that significantly differed between NW and OW or OB dogs. There were notable significant differences in relative abundance of several plasma phospholipid moieties and fecal volatile fatty acids between weight phenotypes. The combinations of host and gut microbiota and metabolic shifts suggest a pattern that could help detection of early metabolic changes in overweight dogs before the development of obesity related disease. The results of this study support the need for continued investigation into sensitive measures of metabolic aberrancies in overweight dogs.     

Genetic characterization of three unique operational taxonomic units of Eimeria from chickens in Australia based on nuclear spacer ribosomal DNA

Coccidiosis of chickens is one of the commonest and economically most important parasitic diseases of poultry worldwide. Given the limitations of traditional approaches, molecular tools have been developed for the specific diagnosis of coccidiosis. Recently, a polymerase chain reaction (PCR)-based capillary electrophoresis (CE) method, employing genetic markers in the second internal transcribed spacer (ITS-2) of nuclear ribosomal DNA, was established for both analytical and diagnostic purposes. The application of this method to investigate the epidemiology of coccidiosis and genetic structures of Eimeria populations on commercial chicken establishments has discovered genetic variants of Eimeria (i.e., new operational taxonomic units OTU-X, OTU-Y and OTU-Z) which were (based on CE analysis) distinct from those of species of Eimeria identified previously in chickens in Australia. The present characterization of these OTUs, based on their ITS-2 sequences and phylogenetic analyses of selected sequence data, provides first evidence to support that OTU-X represents a population variant of Eimeria maxima, and that OTU-Y and OTU-Z represent cryptic species of Eimeria. Further biological and genetic studies are needed to rigorously test these proposals and establish the specific status of these OTUs and their importance as pathogens in chickens. An understanding of the epidemiology of these population variants or cryptic species in Australia is central to designing and implementing effective vaccination and control strategies.     

Detection and diversity of grapevine virus L from a Vitis cultivar collection in Stellenbosch,South Africa

European Journal of Plant Pathology - A total of 229 Vitis cultivars were sampled from a collection in Stellenbosch, Western Cape, South Africa and subjected to an RNAtag-seq workflow and Illumina...