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African swine fever (ASF), classical swine fever (CSF) and foot-and-mouth disease (FMD) are considered to be three of the most detrimental animal diseases and are currently foreign to the U.S. Emerging and re-emerging pathogens can have tremendous impacts in terms of livestock morbidity and mortality events, production losses, forced trade restrictions, and costs associated with treatment and control. The United States is the world's top producer of beef for domestic and export use and the world's third-largest producer and consumer of pork and pork products; it has also recently been either the world's largest or second largest exporter of pork and pork products. Understanding the routes of introduction into the United States and the potential economic impact of each pathogen are crucial to (a) allocate resources to prevent routes of introduction that are believed to be more probable, (b) evaluate cost and efficacy of control methods and (c) ensure that protections are enacted to minimize impact to the most vulnerable industries. With two scoping literature reviews, pulled from global data, this study assesses the risk posed by each disease in the event of a viral introduction into the United States and illustrates what is known about the economic costs and losses associated with an outbreak.

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The aim of this study is to provide a general overview of the economic impacts associated with vertebrate invasive species (VIS) in the United States and suggests a methodology for differentiating types of damage. We identify a general framework for categorizing VIS damage that separates this damage into three main categories: destruction, depredation, and disease. We then examine how this framework fits into current published estimates of damage and management costs. Economic impacts associated with feral swine damage and management are plentiful enough to warrant separate treatment from other VIS and are observed in all three categories. For all VIS examined in this study, damage estimates associated with destruction provide the most evaluations of VIS impacts, especially destruction of crops. Evaluations of the losses associated with depredation are largely absent from the literature. We find that while published studies have estimated substantial economic impact associated with VIS, the current state of the literature focusing on VIS frequently fails to address all of the categories of damage, is difficult to compare or replicate, and is unsuited for extrapolation to nation-wide estimates of damage.

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BACKGROUND: Blackbird (Icteridae) damage to ripening sunflower (Helianthus annuus L.) has been a persistent economic issue in the USA for the last five decades. To quantify losses, we surveyed blackbird damage from 2001 to 2013 (excluding 2004) to physiologically mature sunflower in eight states: North Dakota, South Dakota, Texas, Nebraska, Minnesota, Colorado, Kansas, and Vermont. RESULTS: We pooled data gathered during the most recent 5 years (2009 to 2013) of the survey and found losses averaged $US2.5 million and $US11.3 million for confectionery and oilseed hybrids, respectively. Three states, North Dakota, South Dakota, and Nebraska, had sufficient acreage and bird damage to warrant economic analyses using a regional economic model. The average annual total (direct plus indirect) economic impact of bird damage to sunflower production for North Dakota, South Dakota, and Nebraska was $US18.7 million, $US7.3 million, and $US2.6 million, respectively. CONCLUSION: This study provides a better understanding of the broader economic implications of bird damage to sunflower by estimating the macroeconomic impacts of lost sunflower production in the region. Additionally, the findings of this study may be used to inform decisions regarding bird management policy by providing policymakers with information to determine the downstream value of bird management and the possible benefits of improved methods that further mitigate losses. © 2019 Society of Chemical Industry.

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Wild pigs (Sus scrofa) are a non-native invasive species in the United States that cause significant economic loss, transmit disease, and inflict damage upon natural resources, agriculture, livestock, and property. Geographic distribution of wild pigs in the United States has nearly tripled since 1982, with anthropogenic influences playing a significant role in the expansion. In this regard, there is speculation that a driver of the expansion may be human-mediated movement of wild pigs to new areas for the purpose of sport hunting. In response, states have implemented a variety of wild pig control policies, including legal restrictions on their transport. The success of such policies depends, in part, on their level of public support, which in turn may be influenced by individuals' attitudes concerning wild pigs, their interest in maintaining wild pig populations (e.g., for sport hunting), and their knowledge and awareness of the threats wild pigs pose. Multiple regression was used to analyze data collected from a nationwide survey concerning attitudes toward wild pigs and policies that restrict their transport. Results indicate that a majority of individuals in the United States have negative attitudes toward wild pigs and support policies that restrict their transport and penalize transgressors. Consistent with other invasive species research, findings suggest that as knowledge and awareness of wild pigs increase, so too does support for policies restricting and penalizing transport of wild pigs. Contrary to previous studies, this research also finds that hunters are more likely to support restrictions on wild pig transport than are non-hunters. Overall, these findings suggest that legal restrictions on the transport of wild pigs, even in states with large hunter populations, enjoy broad public support and may help to curb the expansion of wild pig populations.

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The global economic impact of canine rabies has been estimated by several studies. Asia bears a disproportionate burden of this zoonosis due to high levels of human deaths and rates of post-exposure prophylaxis (PEP), but low investment in preventative dog vaccination. The same factors that cause rabies to burden much of Asia are also present in Viet Nam. This study estimated the economic burden of canine rabies in a societal perspective including direct and indirect cost of rabies in dogs, livestock, and humans. Using data collected from personal interviews, published literature, published and supplementary reports, and primary data collection, we estimated the economic impact of canine rabies in Viet Nam over a ten year period (2005-2014). We incorporated the direct and indirect costs for PEP, dog vaccination efforts, livestock losses, and disability adjusted life years (DALYs) into the analysis. General findings from this analysis indicated that over the 10 year study period, the total economic impact of canine rabies was over $719 million USD. The largest portion of impacts (92%) were made up of PEP-related costs. Canine rabies created between 36,560 and 45,700 DALYs, measured in years of life lost (YLL). A total of 914 human deaths were reported over the study period. Deaths/100,000 people were 0.11, which is lower than the reported level for Asian countries. The cost per dog vaccinated was $1.75 USD. Our results indicate that canine rabies impacts in Viet Nam are consistent with the burden elsewhere reported in Asia, with large expenditures on PEP and very small investments in dog vaccination.

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Targeted sequencing of PCR amplicons generated from bisulfite deaminated DNA is a flexible, cost-effective way to study methylation of a sample at single CpG resolution and perform subsequent multi-target, multi-sample comparisons. Currently, no platform specific protocol, support, or analysis solution is provided to perform targeted bisulfite sequencing on a Personal Genome Machine (PGM). Here, we present a novel tool, called TABSAT, for analyzing targeted bisulfite sequencing data generated on Ion Torrent sequencers. The workflow starts with raw sequencing data, performs quality assessment, and uses a tailored version of Bismark to map the reads to a reference genome. The pipeline visualizes results as lollipop plots and is able to deduce specific methylation-patterns present in a sample. The obtained profiles are then summarized and compared between samples. In order to assess the performance of the targeted bisulfite sequencing workflow, 48 samples were used to generate 53 different Bisulfite-Sequencing PCR amplicons from each sample, resulting in 2,544 amplicon targets. We obtained a mean coverage of 282X using 1,196,822 aligned reads. Next, we compared the sequencing results of these targets to the methylation level of the corresponding sites on an Illumina 450k methylation chip. The calculated average Pearson correlation coefficient of 0.91 confirms the sequencing results with one of the industry-leading CpG methylation platforms and shows that targeted amplicon bisulfite sequencing provides an accurate and cost-efficient method for DNA methylation studies, e.g., to provide platform-independent confirmation of Illumina Infinium 450k methylation data. TABSAT offers a novel way to analyze data generated by Ion Torrent instruments and can also be used with data from the Illumina MiSeq platform. It can be easily accessed via the Platomics platform, which offers a web-based graphical user interface along with sample and parameter storage. TABSAT is freely available under a GNU General Public License version 3.0 (GPLv3) at https://github.com/tadkeys/tabsat/ and http://demo.platomics.com/.

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