A Case Study of Bluetooth Technology as a Supplemental Tool in Contact Tracing.

We present results from a 7-day trial of a Bluetooth-enabled card by the New Zealand Ministry of Health to investigate its usefulness in contact tracing. A comparison of the card with traditional contact tracing, which relies on self-reports of contacts to case investigators, demonstrated significantly higher levels of internal consistency in detected contact events by Bluetooth-enabled cards with 88% of contact events being detected by both cards involved in an interaction as compared to 64% for self-reports of contacts to case investigators. We found no clear evidence of memory recall worsening in reporting contact events that were further removed in time from the date of a case investigation. Roughly 66% of contact events between trial participants that were indicated by cards went unreported to case investigators, simultaneously highlighting the shortcomings of traditional contact tracing and the value of Bluetooth technology in detecting contact events that may otherwise go unreported. At the same time, cards detected only 65% of self-reported contact events, in part due to increasing non-compliance as the study progressed. This would suggest that Bluetooth technology can only be considered as a supplemental tool in contact tracing and not a viable replacement to traditional contact tracing unless measures are introduced to ensure greater compliance.

Characterization of inappetent sheep in a feedlot using radio-tracking technology.

The feeding and drinking behaviours of sheep were monitored using RFID technology at a commercial pre-embarkation feedlot in Western Australia with the aim of characterizing feeding and drinking patterns of inappetent sheep that might allow them to be treated. Feeding and drinking behaviours of sheep were compared with their survival and change in body condition. Patterns of number of visits and the time spent at feed and water troughs were analyzed for a total of 8,206 sheep, representing four consignments that were monitored for a range of 6-31 d. Data for feeding and drinking behaviours were compared for the first 6 d. For animals that were alive at exit, 18.9% of sheep attended the feed trough for less than 0.25 h d-1 (15 min per day) on day 1; this decreased to only 2.4% of sheep by day 6. Of the sheep monitored, 0.93% died (n = 76); Salmonella spp. infection was the leading cause of death (n = 40; 52.6% of all deaths) across all months and was accompanied with inanition. There was marked variability in the average time spent at the feed trough for sheep that died eventually from salmonella/inanition (contributing to the lack of statistical difference in time spent at feed trough between sheep dying from different causes; P = 0.056). Over half (55%) of the animals diagnosed with salmonella/inanition spent an average of less than 0.50 h d-1 (30 min per day) and 45% less than 0.25 h d-1 at the feed trough. There was a negative correlation (r) in time spent at the feed trough overtime for individual sheep that died from salmonella/inanition, indicating that these individuals went off their feed. This pattern was not evident for animals that died from other causes (significant difference in r values between five categories of cause of death; P = 0.040). Characterization of feeding behaviour of sheep that died from salmonella/inanition therefore appears to require more than simply monitoring daily intake. There was no difference in time spent at water troughs between sheep that died or were alive at exit (average 0.30 ± 0.23 h d-1). This study reveals that the patterns of feeding and drinking behaviours during pre-embarkation feedlotting do not readily allow identification of animals that warrant singling out for veterinary care or alternative feed arrangements. This result highlights the need for experienced stockmanship in handling these animals.

Evolution of a wild-plant tobamovirus passaged through an exotic host: Fixation of mutations and increased replication.

Tobamovirus is a group of viruses that have become serious pathogens of crop plants. As part of a study informing risk of wild plant virus spill over to crops, we investigated the capacity of a solanaceous-infecting tobamovirus from an isolated indigenous flora to adapt to new exotic hosts. Yellow tailflower mild mottle virus (YTMMV) (genus Tobamovirus, family Virgaviridae) was isolated from a wild plant of yellow tailflower (Anthocercis littoria, family Solanaceae) and initially passaged through a plant of Nicotiana benthamiana, then one of Nicotiana glutinosa where a single local lesion was used to inoculate a N. benthamiana plant. Sap from this plant was used as starting material for nine serial passages through three plant species. The virus titre was recorded periodically, and 85% of the virus genome was sequenced at each passage for each host. Six polymorphic sites were found in the YTMMV genome across all hosts and passages. At five of these, the alternate alleles became fixed in the viral genome until the end of the experiment. Of these five alleles, one was a non-synonymous mutation (U1499C) that occurred only when the virus replicated in tomato. The mutant isolate harbouring U1499C, designated YTMMV-δ, increased its titre over passages in tomato and outcompeted the wild-type isolate when both were co-inoculated to tomato. That YTMMV-δ had greater reproductive fitness in an exotic host than did the wild type isolate suggests YTMMV evolution is influenced by host changes.

A novel member of the Tombusviridae from a wild legume, Gompholobium preissii.

As part of an investigation into viruses of wild plants in Australia, a contiguous sequence of 3935 nucleotides was obtained after shotgun sequencing of RNA isolated from an asymptomatic wild legume, Gompholobium preissii. Phylogenetic analysis of the sequence revealed that it most closely resembled that of Trailing lespedeza virus 1 (TLV1), a virus isolated from a wild legume in America. The proposed virus, named Gompholobium virus A, and TLV1 are genetically closest to viruses in the genera Alphacarmovirus and Pelarspovirus, family Tombusviridae, but they share features distinguishing them from both groups.

A log-linear modelling approach to assessing the consistency of ego reports of dyadic outcomes with applications to fertility and sexual partnerships.

We propose a log-linear model to assess the consistency of ego reports of dyadic outcomes. We do so specifically in the context where males and females report on shared events, and we demonstrate how inconsistencies can be assessed by using a log-linear model that estimates separate mixing totals for each set of reports. This modelling approach immediately allows us to determine where inconsistencies in reports occur. To demonstrate how our method can be easily implemented for survey data, we apply it to both the 1992 National Health and Social Life Survey and the 2002 National Survey of Family Growth. Our analysis identifies inconsistencies in male and female reports of concurrent partnerships and the number of biological children.

Catharanthus mosaic virus: A potyvirus from a gymnosperm, Welwitschia mirabilis.

A virus from a symptomatic plant of the gymnosperm Welwitschia mirabilis Hook. growing as an ornamental plant in a domestic garden in Western Australia was inoculated to a plant of Nicotiana benthamiana where it established a systemic infection. The complete genome sequence of 9636 nucleotides was determined using high-throughput and Sanger sequencing technologies. The genome sequence shared greatest identity (83% nucleotides and 91% amino acids) with available partial sequences of catharanthus mosaic virus, indicating that the new isolate belonged to that taxon. Analysis of the phylogeny of the complete virus sequence placed it in a monotypic group in the genus Potyvirus. This is the first record of a virus from W. mirabilis, the first complete genome sequence of catharanthus mosaic virus determined, and the first record from Australia. This finding illustrates the risk to natural and managed systems posed by the international trade in live plants and propagules, which enables viruses to establish in new regions and infect new hosts.

networksis: A Package to Simulate Bipartite Graphs with Fixed Marginals Through Sequential Importance Sampling.

The ability to simulate graphs with given properties is important for the analysis of social networks. Sequential importance sampling has been shown to be particularly effective in estimating the number of graphs adhering to fixed marginals and in estimating the null distribution of graph statistics. This paper describes the networksis package for R and how its simulate and simulate_sis functions can be used to address both of these tasks as well as generate initial graphs for Markov chain Monte Carlo simulations.

Population constraints on pooled surveys in demographic hazard modeling.

In non-experimental research, data on the same population process may be collected simultaneously by more than one instrument. For example, in the present application, two sample surveys and a population birth registration system all collect observations on first births by age and year, while the two surveys additionally collect information on women's education. To make maximum use of the three data sources, the survey data are pooled and the population data introduced as constraints in a logistic regression equation. Reductions in standard errors about the age and birth-cohort parameters of the regression equation in the order of three-quarters are obtained by introducing the population data as constraints. A halving of the standard errors about the education parameters is achieved by pooling observations from the larger survey dataset with those from the smaller survey. The percentage reduction in the standard errors through imposing population constraints is independent of the total survey sample size.