Dataset Information

VENM: An Algorithm to Accurately Calculate Neutral Slopes and Gradients.

ABSTRACT: Mesoscale eddies stir along the neutral plane, and the resulting neutral diffusion is a fundamental aspect of subgrid-scale tracer transport in ocean models. Calculating neutral diffusion traditionally involves calculating neutral slopes and three-dimensional tracer gradients. The calculation of the neutral slope traditionally occurs by computing the ratio of the horizontal to vertical locally referenced potential density derivative. However, this approach is problematic in regions of weak vertical stratification, prompting the use of a variety of ad hoc regularization methods that can lead to rather nonphysical dependencies for the resulting neutral tracer gradients. Here we use a VErtical Non-local Method "VENM," a search algorithm that requires no ad hoc regularization and significantly improves the numerical accuracy of calculating neutral slopes, neutral tracer gradients, and associated neutral diffusive fluxes. We compare and contrast VENM against a more traditional method, using an independent objective neutrality condition combined with estimates of spurious diffusion, heat transport, and water mass transformation rates. VENM is more accurate, both physically and numerically, and should form the basis for future efforts involving neutral diffusion calculations from observations and possibly numerical model simulations.

SUBMITTER: Groeskamp S

PROVIDER: S-EPMC6774288 | biostudies-literature | 2019 Aug

REPOSITORIES: biostudies-literature

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Publications

VENM: An Algorithm to Accurately Calculate Neutral Slopes and Gradients.

Groeskamp Sjoerd S Barker Paul M PM McDougall Trevor J TJ Abernathey Ryan P RP Griffies Stephen M SM

Journal of advances in modeling earth systems 20190701 7

Mesoscale eddies stir along the neutral plane, and the resulting neutral diffusion is a fundamental aspect of subgrid-scale tracer transport in ocean models. Calculating neutral diffusion traditionally involves calculating neutral slopes and three-dimensional tracer gradients. The calculation of the neutral slope traditionally occurs by computing the ratio of the horizontal to vertical locally referenced potential density derivative. However, this approach is problematic in regions of weak verti ...[more]

PMID: 31598190

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Project description:BackgroundHeatwaves could cause the population excess death numbers to be ranged from tens to thousands within a couple of weeks in a local area. An excess mortality due to a special event (e.g., a heatwave or an epidemic outbreak) is estimated by subtracting the mortality figure under 'normal' conditions from the historical daily mortality records. The calculation of the excess mortality is a scientific challenge because of the stochastic temporal pattern of the daily mortality data which is characterised by (a) the long-term changing mean levels (i.e., non-stationarity); (b) the non-linear temperature-mortality association. The Hilbert-Huang Transform (HHT) algorithm is a novel method originally developed for analysing the non-linear and non-stationary time series data in the field of signal processing, however, it has not been applied in public health research. This paper aimed to demonstrate the applicability and strength of the HHT algorithm in analysing health data.MethodsSpecial R functions were developed to implement the HHT algorithm to decompose the daily mortality time series into trend and non-trend components in terms of the underlying physical mechanism. The excess mortality is calculated directly from the resulting non-trend component series.ResultsThe Brisbane (Queensland, Australia) and the Chicago (United States) daily mortality time series data were utilized for calculating the excess mortality associated with heatwaves. The HHT algorithm estimated 62 excess deaths related to the February 2004 Brisbane heatwave. To calculate the excess mortality associated with the July 1995 Chicago heatwave, the HHT algorithm needed to handle the mode mixing issue. The HHT algorithm estimated 510 excess deaths for the 1995 Chicago heatwave event. To exemplify potential applications, the HHT decomposition results were used as the input data for a subsequent regression analysis, using the Brisbane data, to investigate the association between excess mortality and different risk factors.ConclusionsThe HHT algorithm is a novel and powerful analytical tool in time series data analysis. It has a real potential to have a wide range of applications in public health research because of its ability to decompose a nonlinear and non-stationary time series into trend and non-trend components consistently and efficiently.

Project description:Neotropical mountain streams are important contributors of biological diversity. Two species of the characid genus Rhoadsia differing for an ecologically important morphological trait, body depth, have been described from mountain streams of the western slopes of the Andes in Ecuador. Rhoadsia altipinna is a deeper-bodied species reported from low elevations in southwestern Ecuador and northern Peru, and Rhoadsia minor is a more streamlined species that was described from high elevations (>1200 m) in the Esmeraldas drainage in northwestern Ecuador. Little is known about these species and their validity as distinct species has been questioned. In this study, we examine how their body shape varies along replicated elevational gradients in different drainages of western Ecuador using geometric morphometrics and the fineness ratio. We also use sequences of the mitochondrial cytochrome oxidase c I gene and the second intron of the S7 nuclear gene to examine whether genetic data are consistent with the existence of two species. We found that body depth varies continuously among populations within drainages as a function of elevation, and that body shape overlaps among drainages, such that low elevation populations of R. minor in the Esmeraldas drainage have similar body depths to higher elevation R. altipinna in southern drainages. Although a common general trend of declining body depth with elevation is clear, the pattern and magnitude of body shape divergence differed among drainages. Sequencing of mitochondrial and nuclear genes failed to meet strict criteria for the recognition of two species (e.g., reciprocal monophyly and deep genetic structure). However, there was a large component of genetic variation for the COI gene that segregated among drainages, indicating significant genetic divergence associated with geographic isolation. Continued research on Rhoadsia in western Ecuador may yield significant insight into adaptation and speciation in Neotropical mountain streams.

Dataset Information

VENM: An Algorithm to Accurately Calculate Neutral Slopes and Gradients.

Publications

VENM: An Algorithm to Accurately Calculate Neutral Slopes and Gradients.

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