Multilayer and multiplex networks: an introduction to their use in veterinary epidemiology

This is the final version. Available from Frontiers Media via the DOI in this record.Contact network analysis has become a vital tool for conceptualizing the spread of pathogens in animal populations and is particularly useful for understanding the implications of heterogeneity in contact patterns for transmission. However, the transmission of most pathogens cannot be simplified to a single mode of transmission and, thus, a single definition of contact. In addition, host-pathogen interactions occur in a community context, with many pathogens infecting multiple host species and most hosts being infected by multiple pathogens. Multilayer networks provide a formal framework for researching host-pathogen systems in which multiple types of transmission-relevant interactions, defined as network layers, can be analyzed jointly. Here, we provide an overview of multilayer network analysis and review applications of this novel method to epidemiological research questions. We then demonstrate the use of this technique to analyze heterogeneity in direct and indirect contact patterns amongst swine farms in the United States. When contact among nodes can be defined in multiple ways, a multilayer approach can advance our ability to use networks in epidemiological research by providing an improved approach for defining epidemiologically relevant groups of interacting nodes and changing the way we identify epidemiologically important individuals such as superspreaders.Biotechnology and Biological Sciences Research Council (BBSRC)NIFA-NSF-NIH Ecology and Evolution of Infectious Disease awardAgriculture and Food Research InitiativeSwine Health Information Center (SHIC)University of MinnesotaUniversity of Exete

Sex, Drugs and Alcohol: What Adventist College Students Say about the Role of Parents and Religion

Relationships with peers, parents, and God make a difference in the behavior choices of youth. If a young person spends time with peers who don’t use substances and are planning to wait until they get married to have sex, they are less likely to engage in these behaviors. In addition, if the youth has a close relationship with parents who clearly state their standards regarding substance use and premarital sex, they are less likely to practice these behaviors. Finally, when the young person has a close relationship with God, they are more likely to care about the religious standards such as, the body is God’s temple and sex is for marriage

Does State Certification or Licensure Influence Outpatient Substance Abuse Treatment Program Practices?

In the United States, state governments legally authorize outpatient substance abuse treatment programs. In some states, programs are certified or accredited (ideal standards). Other states license programs (minimal standards). Additionally, some states authorize programs through deemed status , which is afforded to programs attaining accreditation from a national accrediting body. Primary legal research and the National Survey of Substance Abuse Treatment Services\u27 (N-SSATS) data were used to examine the relationships between state authorization type (certification/accreditation vs licensure with and without deemed status) and outpatient treatment program practices. Programs in certification/accreditation (vs licensure) states had significantly higher odds of offering wrap-around and continuing care/after care services associated with better long-term treatment outcome. Programs in states that allowed for certification/accreditation with deemed status had significantly lower odds of infectious disease testing, but higher odds of providing group and family counseling. Results suggest that state authorization type may impact services offered by outpatient treatment programs

Extracurricular Screen Time among Idaho Youth: Prevalence and Association with Psychological Distress

Objectives: To measure the daily hour prevalence of informal computer and video games use among Idaho youth, and to examine the association between usage hours and selected psychological variables, including feelings of hopelessness, suicidal ideation, and past suicide attempts. Methods: Data analyses was performed on responses obtained via anonymous questionnaires from a sample of school children ages 12-18 (n=1,678) who completed the 2011 CDC Youth Risk Behavior Survey at randomly selected schools in Idaho. Results: Analysis showed that males were more likely to report three or more hours of screen time per day, while a higher percentage of females than males reported experiencing psychological distress. Females engaging in three or more hours of daily screen time were more likely than boys to have in the past 12 months engaged in intentional self-harm behaviors, reported suicidal ideation or feelings of sadness or to have planned suicide. Conclusions: Our findings confirm the inverse relationship between screen time and mental health. The data suggest that excessive recreational computer or video game use among females almost doubles the odds of significant mental health problems. Future research is needed to clarify the nature of these associations

State Methamphetamine Precursor Policies and Changes in Small Toxic Lab Methamphetamine Production

Domestic production of methamphetamine in small toxic labs (STLs) results in significant community safety and health consequences. This paper examines the effects of state-level policies implemented in the middle of the last decade in reaction to a rapid increase in STL labs. These policies focused on controlling access to the methamphetamine precursor chemicals ephedrine and pseudoephedrine and the relationship of such policies with actual STL seizure rates. Data include (a) primary legal research on state laws/regulations in all 50 states in effect as of October 1, 2005; and (b) STL seizure counts for 2004–2006. Results from random effects cross-sectional time-series regression models showed that states with the greatest reduction in STL seizures had comprehensive policies involving quantity limits on methamphetamine precursor purchases, clerk intervention requirements (such as requiring buyer identification) and regulatory agency specification for monitoring compliance and tracking multiple purchases. Criminalizing purchasing violations was not related to STL reductions

Trends in Substance Use in a Prohibitionist University Compared to General College Populations

Researchers at the Institute for the Prevention of Addictions have conducted surveys on health risk behaviors among Andrews University students from 1995 to 2023. In examinations of five data points between 1995 and 2018, the gap in the rates of substance use between Andrews University students and a general U.S. college population remained about the same each time period. However, both groups tended to increase or decrease use over the same time periods. Data from the March 2023 collection period will be included in the presentation and will be examined to see if cultural levelling has occurred or if Andrews students have been able to resist the pull of cultural levelling

Temporal dynamics of co-circulating lineages of porcine reproductive and respiratory syndrome virus

Porcine Reproductive and Respiratory Syndrome Virus (PRRSV) is the most important endemic pathogen in the U.S. swine industry. Despite control efforts involving improved biosecurity and different vaccination protocols, the virus continues to circulate and evolve. One of the foremost challenges in its control is high levels of genetic and antigenic diversity. Here, we quantify the co-circulation, emergence and sequential turnover of multiple PRRSV lineages in a single swine-producing region in the United States over a span of 9 years (2009–2017). By classifying over 4,000 PRRSV sequences (open-reading frame 5) into phylogenetic lineages and sub-lineages, we document the ongoing diversification and temporal dynamics of the PRRSV population, including the rapid emergence of a novel sub-lineage that appeared to be absent globally pre-2008. In addition, lineage 9 was the most prevalent lineage from 2009 to 2010, but its occurrence fell to 0.5% of all sequences identified per year after 2014, coinciding with the emergence or re-emergence of lineage 1 as the dominant lineage. The sequential dominance of different lineages, as well as three different sub-lineages within lineage 1, is consistent with the immune-mediated selection hypothesis for the sequential turnover in the dominant lineage. As host populations build immunity through natural infection or vaccination toward the most common variant, this dominant (sub-) lineage may be replaced by an emerging variant to which the population is more susceptible. An analysis of patterns of non- synonymous and synonymous mutations revealed evidence of positive selection on immunologically important regions of the genome, further supporting the potential that immune-mediated selection shapes the evolutionary and epidemiological dynamics for this virus. This has important implications for patterns of emergence and re-emergence of genetic variants of PRRSV that have negative impacts on the swine industry. Constant surveillance on PRRSV occurrence is crucial to a better understanding of the epidemiological and evolutionary dynamics of co-circulating viral lineages. Further studies utilizing whole genome sequencing and exploring the extent of cross-immunity between heterologous PRRS viruses could shed further light on PRRSV immunological response and aid in developing strategies that might be able to diminish disease impact

Phylogenetic Structure and Sequential Dominance of Sub-Lineages of PRRSV Type-2 Lineage 1 in the United States

The genetic diversity and frequent emergence of novel genetic variants of porcine reproductive and respiratory syndrome virus type-2 (PRRSV) hinders control efforts, yet drivers of macro-evolutionary patterns of PRRSV remain poorly documented. Utilizing a comprehensive database of >20,000 orf5 sequences, our objective was to classify variants according to the phylogenetic structure of PRRSV co-circulating in the U.S., quantify evolutionary dynamics of sub-lineage emergence, and describe potential antigenic differences among sub-lineages. We subdivided the most prevalent lineage (Lineage 1, accounting for approximately 60% of available sequences) into eight sub-lineages. Bayesian coalescent SkyGrid models were used to estimate each sub-lineage’s effective population size over time. We show that a new sub-lineage emerged every 1 to 4 years and that the time between emergence and peak population size was 4.5 years on average (range: 2–8 years). A pattern of sequential dominance of different sub-lineages was identified, with a new dominant sub-lineage replacing its predecessor approximately every 3 years. Consensus amino acid sequences for each sub-lineage differed in key GP5 sites related to host immunity, suggesting that sub-lineage turnover may be linked to immune-mediated competition. This has important implications for understanding drivers of genetic diversity and emergence of new PRRSV variants in the U.S

Genome sequences of seven foot-andmouth disease virus isolates collected from serial samples from one persistently infected carrier cow in Vietnam

Several foot-and-mouth disease virus (FMDV) carrier cattle were identified in Vietnam by the recovery of infectious virus from oropharyngeal fluid. This report contains the first near-complete genome sequences of seven viruses from sequential samples from one carrier animal collected over the course of 1 year. The characterization of within-host viral evolution has implications for FMDV control strategies