Phytoplankton absorption and the chlorophyll a–specific absorption coefficient in dynamic Onondaga Lake

Phytoplankton absorption and its dependence on the concentration of chlorophyll a (Chl-a), as represented by the Chl-a–specific absorption coefficient (a*φ(λ)), is important to support models of growth and for bio-optical remote sensing algorithms to retrieve Chl-a. The dynamics of the phytoplankton absorption coefficient (aφ(λ)) and a*φ(λ), and their dependencies on Chl-a, are described for Onondaga Lake, New York, over a 6-year period for which major changes in trophic state, Chl-a, and community composition occurred. Strong positive dependencies of aφ(λ) on Chl-a are reported for absorption peaks in both the blue and red spectral regions that are qualitatively similar to relationships for ocean waters but differ quantitatively. Average values of a*φ at wavelengths of 440 and 676 nm were 0.0347 and 0.0171 m2 mg−1, respectively, with coefficients of variation of 37 and 31%. Significant negative relationships between a*φ and Chl-a were observed for blue and green wavelengths that were qualitatively consistent with the influences of pigment packaging and the contribution of accessory pigments to absorption. The operation of these influences is demonstrated through various forms of data analysis that resolved the following significant relationships: (1) negative dependence of the ratio aφ(440):aφ(676) on Chl-a; (2) flattening of aφ spectra in the blue and increases at the red maximum, with increases in Chl-a; and (3) negative dependence of aφ(490):aφ(676) on Chl-a. Values of a*φ(440) and a*φ(676) obtained for Onondaga Lake are considered in the context of the limited population reported for other inland waters and selected marine systems

Estimating the impact of city-wide Aedes aegypti population control: An observational study in Iquitos, Peru.

During the last 50 years, the geographic range of the mosquito Aedes aegypti has increased dramatically, in parallel with a sharp increase in the disease burden from the viruses it transmits, including Zika, chikungunya, and dengue. There is a growing consensus that vector control is essential to prevent Aedes-borne diseases, even as effective vaccines become available. What remains unclear is how effective vector control is across broad operational scales because the data and the analytical tools necessary to isolate the effect of vector-oriented interventions have not been available. We developed a statistical framework to model Ae. aegypti abundance over space and time and applied it to explore the impact of citywide vector control conducted by the Ministry of Health (MoH) in Iquitos, Peru, over a 12-year period. Citywide interventions involved multiple rounds of intradomicile insecticide space spray over large portions of urban Iquitos (up to 40% of all residences) in response to dengue outbreaks. Our model captured significant levels of spatial, temporal, and spatio-temporal variation in Ae. aegypti abundance within and between years and across the city. We estimated the shape of the relationship between the coverage of neighborhood-level vector control and reductions in female Ae. aegypti abundance; i.e., the dose-response curve. The dose-response curve, with its associated uncertainties, can be used to gauge the necessary spraying effort required to achieve a desired effect and is a critical tool currently absent from vector control programs. We found that with complete neighborhood coverage MoH intra-domicile space spray would decrease Ae. aegypti abundance on average by 67% in the treated neighborhood. Our framework can be directly translated to other interventions in other locations with geolocated mosquito abundance data. Results from our analysis can be used to inform future vector-control applications in Ae. aegypti endemic areas globally

Statistical competencies for medical research learners: What is fundamental?

IntroductionIt is increasingly essential for medical researchers to be literate in statistics, but the requisite degree of literacy is not the same for every statistical competency in translational research. Statistical competency can range from 'fundamental' (necessary for all) to 'specialized' (necessary for only some). In this study, we determine the degree to which each competency is fundamental or specialized.MethodsWe surveyed members of 4 professional organizations, targeting doctorally trained biostatisticians and epidemiologists who taught statistics to medical research learners in the past 5 years. Respondents rated 24 educational competencies on a 5-point Likert scale anchored by 'fundamental' and 'specialized.'ResultsThere were 112 responses. Nineteen of 24 competencies were fundamental. The competencies considered most fundamental were assessing sources of bias and variation (95%), recognizing one's own limits with regard to statistics (93%), identifying the strengths, and limitations of study designs (93%). The least endorsed items were meta-analysis (34%) and stopping rules (18%).ConclusionWe have identified the statistical competencies needed by all medical researchers. These competencies should be considered when designing statistical curricula for medical researchers and should inform which topics are taught in graduate programs and evidence-based medicine courses where learners need to read and understand the medical research literature

Vectorial capacity and vector control: reconsidering sensitivity to parameters for malaria elimination

Background: Major gains have been made in reducing malaria transmission in many parts of the world, principally by scaling-up coverage with long-lasting insecticidal nets and indoor residual spraying. Historically, choice of vector control intervention has been largely guided by a parameter sensitivity analysis of George Macdonald's theory of vectorial capacity that suggested prioritizing methods that kill adult mosquitoes. While this advice has been highly successful for transmission suppression, there is a need to revisit these arguments as policymakers in certain areas consider which combinations of interventions are required to eliminate malaria.Methods and Results: Using analytical solutions to updated equations for vectorial capacity we build on previous work to show that, while adult killing methods can be highly effective under many circumstances, other vector control methods are frequently required to fill effective coverage gaps. These can arise due to pre-existing or developing mosquito physiological and behavioral refractoriness but also due to additive changes in the relative importance of different vector species for transmission. Furthermore, the optimal combination of interventions will depend on the operational constraints and costs associated with reaching high coverage levels with each intervention.Conclusions: Reaching specific policy goals, such as elimination, in defined contexts requires increasingly non-generic advice from modelling. Our results emphasize the importance of measuring baseline epidemiology, intervention coverage, vector ecology and program operational constraints in predicting expected outcomes with different combinations of interventions.<br/

Calling in sick: Impacts of fever on intra-urban human mobility

© 2016 The Author(s) Published by the Royal Society. All rights reserved. Pathogens inflict a wide variety of disease manifestations on their hosts, yet the impacts of disease on the behaviour of infected hosts are rarely studied empirically and are seldom accounted for in mathematical models of transmission dynamics. We explored the potential impacts of one of the most common disease manifestations, fever, on a key determinant of pathogen transmission, host mobility, in residents of the Amazonian city of Iquitos, Peru. We did so by comparing two groups of febrile individuals (dengue-positive and dengue-negative) with an afebrile control group. A retrospective, semi-structured interview allowed us to quantify multiple aspects of mobility during the two-week period preceding each interview. We fitted nested models of each aspect of mobility to data from interviews and compared models using likelihood ratio tests to determine whether there were statistically distinguishable differences in mobility attributable to fever or its aetiology. Compared with afebrile individuals, febrile study participants spent more time at home, visited fewer locations, and, in some cases, visited locations closer to home and spent less time at certain types of locations. These multifaceted impacts are consistent with the possibility that disease-mediated changes in host mobility generate dynamic and complex changes in host contact network structure

Linking CDOM patterns in Cayuga Lake, New York, USA, to terrigenous inputs

Lacustrine patterns of the light absorption of colored dissolved organic matter (aCDOM) and its composition proxies were resolved and linked to concurrent conditions of tributary inputs for Cayuga Lake, New York. We analyzed fixed-frequency samples of the lake at 3 sites and runoff event-based samples at the mouths of 3 gauged tributaries over a 7 month interval and measured dissolved organic carbon (DOC) and aCDOM over the visible wavelengths (400&ndash;700 nm) and at 254 nm. The tributaries are demonstrated to be enriched in aCDOM and DOC, with widely different proxy conditions compared to the lake, which further diverge during runoff events. DOC, aCDOM, and the composition proxies for the tributaries had significant, and mostly strong, dependencies on flow rate, described by power-law relationships. The differences in the composition proxies indicated lower contributions of CDOM to the DOC pool, reduced aromaticity, decreased molecular size of CDOM, and decreased amounts of humic versus fulvic acids in the lake compared to the tributaries, all accepted signatures of photobleaching. Dynamics of aCDOM in the upper waters of the lake depended primarily on composition (e.g., color quality) and secondarily on a quantity metric (DOC), as demonstrated in a 2-component linear least-squares regression format. Signatures of linkages between the terrestrial inputs and in-lake aCDOM patterns and the effects of photobleaching include (1) the preferential in-lake loss of aCDOM relative to DOC, estimated from budget calculations; (2) the intermediate characteristics resolved at a near-shore site adjoining multiple tributary inflows; and (3) the magnitude and character of the dynamics observed at the pelagic sites

No-Boundary Thinking in Bioinformatics Research

Currently there are definitions from many agencies and research societies defining bioinformatics as deriving knowledge from computational analysis of large volumes of biological and biomedical data. Should this be the bioinformatics research focus? We will discuss this issue in this review article. We would like to promote the idea of supporting human-infrastructure (HI) with no-boundary thinking (NT) in bioinformatics (HINT)

First Case of Bioterrorism-Related Inhalational Anthrax in the United States, Palm Beach County, Florida, 2001

On October 4, 2001, we confirmed the first bioterrorism-related anthrax case identified in the United States in a resident of Palm Beach County, Florida. Epidemiologic investigation indicated that exposure occurred at the workplace through intentionally contaminated mail. One additional case of inhalational anthrax was identified from the index patient’s workplace. Among 1,076 nasal cultures performed to assess exposure, Bacillus anthracis was isolated from a co-worker later confirmed as being infected, as well as from an asymptomatic mail-handler in the same workplace. Environmental cultures for B. anthracis showed contamination at the workplace and six county postal facilities. Environmental and nasal swab cultures were useful epidemiologic tools that helped direct the investigation towards the infection source and transmission vehicle. We identified 1,114 persons at risk and offered antimicrobial prophylaxis