Adaptive wear-based changes in dental topography associated with atelid (Mammalia: Primates) diets

Pampush, James D.; Spradley, Jackson P; Morse, Paul; Griffith, Darbi; Gladman, Justin T.; Gonzales, Lauren A; Kay, Richard F.

doi:10.1093/biolinnean/bly069

Cited by 25 publications

(27 citation statements)

References 75 publications

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“…In examining the efficacy of this formula, we compared molaR‐ based OPCR values from an earlier project to some taxa calculated here. Pampush et al () reported OPCR values for both Ateles and Alouatta lower molars. As can be seen in Figure there is extensive overlap in the distributions of OPCR for both Ateles and Alouatta , even though these samples are drawn from different projects and are of different teeth.…”

Section: Discussionmentioning

confidence: 99%

“…A subset of platyrrhine upper second molar (M 2 ) scans produced by Ungar et al () were reused in this study (see Table for inventory). PLY files generally conforming to the established standards for DNE mesh analyses were produced (see Bunn et al, ; Pampush et al, , , ; Spradley et al, ; Winchester et al, ) following a multistep conversion process detailed in the supplemental materials. One frequently used metric, Relief Index (RFI see: Boyer, ) was not included in the analyses because the scans used here did not include the entire sidewalls of the teeth, as is required for the RFI calculation.…”

Section: Methodsmentioning

confidence: 99%

“…MorphoTester (Winchester, ), calculates OPCR, DNE, and OR (see Berthaume, ; Berthaume, Delezene & Kupczik, ; Berthaume & Schroer, ; Polivka, ; Prufrock, Boyer & Silcox, ). Finally, molaR, an R package capable of calculating OPCR, DNE, m , and OR (Pampush et al, ) has been employed in a number of dental topography studies (e.g., Harper, Parras & Rougier, in press; Pampush et al, , ; Peredo, Peredo & Pyenson, ; Renaud & Ledevin, ; Renaud et al, ).…”

Section: Introductionmentioning

confidence: 99%

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Technical note: Comparing dental topography software using platyrrhine molars

Pampush

Crowell

Karme

et al. 2019

American J Phys Anthropol

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Objectives: There remain many idiosyncrasies among the values calculated for varying dental topography metrics arising from differences in software preferences among research groups.The aim of this work is to compare and provide potential conversion formulae for dental topography metrics calculated using differing software platforms. Methods: Three software packages: ArcGIS, Surfer Manipulator, and molaR were used to calculate orientation patch count rotated (OPCR), Dirichlet normal energy (DNE), occlusal relief (OR), slope (m), and angularity (a) on platyrrhine second upper molars. Values derived from the various software packages were compared for distributional consistency and correlation. Where appropriate, formulae for conversion between like measures calculated on different software platforms were developed.Results: When compared with the same measurement across software, OPCR, OR, and slope were all highly correlated. However, only OR demonstrated distributional consistency (i.e., nearly consistent mean, median, max, and min). Slope and OPCR were both higher when calculated by molaR as compared to Surfer Manipulator and ArcGIS calculations, conversion formulae are provided for these measures. DNE is only weakly correlated with angularity; but is correlated with orientation patch count across taxa. Discussion:We explore why there is variation in the dental topography values calculated among the various software packages. The conversion formulae provided in this work will make possible direct comparisons among studies conducted across multiple research groups.

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Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Technical note: Comparing dental topography software using platyrrhine molars

Pampush

Crowell

Karme

et al. 2019

American J Phys Anthropol

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“…Depending on the cropping method used (see below), RFI can either reflect relative tooth or cusp area. (Note, when the basin cropping method is used, some authors refer to RFI as occlusal relief, OR [24,35,36]. ) Relatively taller teeth/cusps have higher RFI values.…”

Section: Introductionmentioning

confidence: 99%

Effects of cropping, smoothing, triangle count, and mesh resolution on 6 dental topographic metrics

2019

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Dental topography is a widely used method for quantifying dental morphology and inferring dietary ecology in animals. Differences in methodology have brought into question the comparability of different studies. Using primate mandibular second molars, we investigated the effects of mesh preparation parameters smoothing, cropping, and triangle count/mesh resolution (herein, resolution) on six topographic variables (Dirichlet normal energy, DNE; orientation patch count rotated, OPCR; relief index, RFI; ambient occlusion, portion de ciel visible, PCV; enamel surface area, SA; tooth size) to determine the effects of smoothing, cropping, and triangle count/resolution on topographic values and the relationship between these values and diet. All topographic metrics are sensitive to smoothing, cropping method, and triangle count/resolution. In general, smoothing decreased DNE, OPCR, RFI, and SA, increased PCV, and had no predictable effect on tooth size. Relative to the basin cut off (BCO) cropping method, the entire enamel cap (EEC) method increased RFI, SA, and size, and had no predictable effect on DNE and OPCR. Smoothing and cropping affected DNE/OPCR and surfaces with low triangle counts more than other metrics and surfaces with high triangle counts. There was a positive correlation between DNE/OPCR and triangle count/resolution, and the rate of increase was weakly correlated to diet. PCV tended to converge or decrease with increases in triangle count/resolution, and RFI, SA, and size converged. Finally, there appears to be no optimal triangle count or resolution for predicting diet from this sample, and constant triangle count appeared to perform better than constant resolution for predicting diet.

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“…The insensitivity of ariaDNE under varying mesh preparation protocols makes it more widely usable than DNE for comparing and combining results from studies with varying samples or mesh preparation protocols. The computed ariaDNE values for previously published DNE studies (Berthaume, Delezene, & Kupczik, ; Berthaume & Schroer, ; Bunn et al., ; López‐Torres, Selig, Prufrock, Lin, & Silcox, ; Pampush, Spradley et al., ; Pampush, Winchester, et al., ; Pampush et al., ; Prufrock, Boyer, & Silcox, ; Winchester et al., ) are included in the supplementary materials and available to download as csv files from https://sshanshans.github.io/articles/ariadne.html. We will continue to update our website as we obtain access to more data samples.…”

Section: Discussionmentioning

confidence: 99%

ariaDNE: A robustly implemented algorithm for Dirichlet energy of the normal

et al. 2019

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Shape characterizers are metrics that quantify aspects of the overall geometry of a three‐dimensional (3D) digital surface. When computed for biological objects, the values of a shape characterizer are largely independent of homology interpretations and often contain a strong ecological and functional signal. Thus, shape characterizers are useful for understanding evolutionary processes. Dirichlet normal energy (DNE) is a widely used shape characterizer in morphological studies. Recent studies found that DNE is sensitive to various procedures for preparing 3D mesh from raw scan data, raising concerns regarding comparability and objectivity when utilizing DNE in morphological research. We provide a robustly implemented algorithm for computing the Dirichlet energy of the normal (ariaDNE) on 3D meshes. We show through simulation that the effects of preparation‐related mesh surface attributes, such as triangle count, mesh representation, noise, smoothing and boundary triangles, are much more limited on ariaDNE than DNE. Furthermore, ariaDNE retains the potential of DNE for biological studies, illustrated by its effectiveness in differentiating species by dietary preferences. Use of ariaDNE can dramatically enhance the assessment of the ecological aspects of morphological variation by its stability under different 3D model acquisition methods and preparation procedure. Towards this goal, we provide scripts for computing ariaDNE and ariaDNE values for specimens used in previously published DNE analyses.

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Adaptive wear-based changes in dental topography associated with atelid (Mammalia: Primates) diets

Cited by 25 publications

References 75 publications

Technical note: Comparing dental topography software using platyrrhine molars

Technical note: Comparing dental topography software using platyrrhine molars

Effects of cropping, smoothing, triangle count, and mesh resolution on 6 dental topographic metrics

ariaDNE: A robustly implemented algorithm for Dirichlet energy of the normal

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