Dataset Information

Using pictographs as traits to explore morphological diversity in sharks.

ABSTRACT: Body shape is a foundational trait on the differences between species. However, morphological measurements can be simplifying and, for many taxa, can be distorted upon preservation or are difficult to collect due to a species' habit or size. Scientific illustrations, or pictographs, provide information on a species' morphology but are rarely used as traits. Here, we demonstrate the use of pictographs using two shark clades: Lamniformes and Carcharhinidae + Sphyrnidae. After collecting 473 pictographs from 67 species across 12 sources, we used landmarking to show that measurements derived from pictographs do not substantially differ from those garnered from specimens. We then used Elliptical Fourier Analysis and principal components analysis to construct a multivariate morphospace. Using global shape measurements, we evaluated whether substantial variability in body shape was introduced by habitat association, endemism, or illustrator. We found that a species' habitat preference strongly influenced the discovery rate of pictographs and the within-species similarity. While illustrations varied within a species, only a limited set of illustrators exhibited significant systematic variability. We also demonstrated the utility of pictographs in two common applications. For ancestral trait reconstruction, we developed a simple extension to estimate body shapes from principal components and, in doing so, observed that the Lamnid body plan diverged from the rest of Lamniformes ~100 MYA. For phylogenetic generalized linear mixed models (PGLMM), we found that the pictographs had greater explanatory power than traditional morphological measurements. We used the PGLMM to show that higher endemism across Carcharhinidae + Sphyrnidae taxa correlates with body shapes that have caudal fins with small heterocercal angles and more pronounced second dorsal/anal fins. We concluded that pictographs are likely an undervalued and easy-to-digitize data source on a species' body shape with numerous established methods for comparing pictographs and assessing variability.

SUBMITTER: Siders ZA

PROVIDER: S-EPMC9873591 | biostudies-literature | 2023 Jan

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Using pictographs as traits to explore morphological diversity in sharks.

Siders Zachary A ZA Caltabellotta Fabio P FP Loesser Katherine B KB Trotta Lauren B LB Baiser Benjamin B

Ecology and evolution 20230124 1

Body shape is a foundational trait on the differences between species. However, morphological measurements can be simplifying and, for many taxa, can be distorted upon preservation or are difficult to collect due to a species' habit or size. Scientific illustrations, or pictographs, provide information on a species' morphology but are rarely used as traits. Here, we demonstrate the use of pictographs using two shark clades: Lamniformes and Carcharhinidae + Sphyrnidae. After collecting 473 pictog ...[more]

PMID: 36713493

Similar Datasets

Project description:The goal of the current study was to assess genetic variability in Momordica dioica for both qualitative and morphological features to create trait-specific lines. The correlation coefficients among twenty-three different traits of twenty-one Momordica dioica gynoecious accessions calculated and summarized by using the best linear unbiased predictor (BLUPs). The traits contribution to principal components for growth, yield and yield attributing characters positively contributed towards the PC-I were tender fruit weight (FWT), mature fruit weight (FWM), ripen fruit weight (FWR), fruit yield per plant (MFYP), fruit yield per hectare (MFPH), seeds per fruit (NSF), fruit length (FL), fruit diameter (FD), inter-nodal length (IL), fruit pedicel length (FPL), leaf width (LW), leaf length (LL) and vine length (VL). Three groups were identified; group III had the most genotypes (10), followed by cluster II (07), and cluster I (04). Group II and III had the greatest inter-cluster value (8.73811), proceeded by group III and group I (8.738105) which indicates a wider genetic base among the genotypes under study. For the twenty-three traits, different genetic traits were analyzed, including heritability (H2), genetic advance (GA), genetic advance as a percentage of mean (GAM), and phenotypic coefficient of variability and genotypic coefficient of variability (PCV & GCV). High PCV and GCV were noted respectively for the VL (26.93 and 26.24), number of stems per plant (28.12 and 21.03), LL (23.60 and 23.48), LW (21.21 and 21.09), FPL (37.53 and 36.74), FL (22.06 and 21.75), FD (22.65 and 22.60), FWT (39.77 and 49.76), FWM (51.07 and 51.01), FWR (51.97 and 51.79), fruits per plant (51.97 and 51.79), NSF (22.99 and 21.06), 100 Seed weight (141.25 and 141.25), MFYP (54.14 and 53.94) and MFYH (54.13 and 53.93). High GA as per cent grand mean was observed for VL (73.59%), number stem per plant (23.76%), FL (22.01%), FD (23.40%), FWT (24.07%), NFP (99.70%), 100 Seed weight (25.55%), MFYP (21.14%), MFYH (28.55%) and ascorbic acid (115.58%). The study provided a comprehensive of genetic variability of Momordica dioica for morphological and qualitative traits to support the development of gynoecious lines with specific traits.

Project description:BackgroundWeedy rice, a conspecific weedy counterpart of the cultivated rice (Oryza sativa L.), has been problematic in rice-production area worldwide. Although we started to know about the origin of some weedy traits for some rice-growing regions, an overall assessment of weedy trait-related loci was not yet available. On the other hand, the advances in sequencing technologies, together with community efforts, have made publicly available a large amount of genomic data. Given the availability of public data and the need of "weedy" allele mining for a better management of weedy rice, the objective of the present study was to explore the genetic architecture of weedy traits based on publicly available data, mainly from the 3000 Rice Genome Project (3K-RGP).ResultsBased on the results of population structure analysis, we have selected 1378 individuals from four sub-populations (aus, indica, temperate japonica, tropical japonica) without admixed genomic composition for genome-wide association analysis (GWAS). Five traits were investigated: awn color, seed shattering, seed threshability, seed coat color, and seedling height. GWAS was conducted for each sub-population × trait combination and we have identified 66 population-specific trait-associated SNPs. Eleven significant SNPs fell into an annotated gene and four other SNPs were close to a putative candidate gene (± 25 kb). SNPs located in or close to Rc were particularly predictive of the occurrence of seed coat color and our results showed that different sub-populations required different SNPs for a better seed coat color prediction. We compared the data of 3K-RGP to a publicly available weedy rice dataset. The profile of allele frequency, phenotype-genotype segregation of target SNP, as well as GWAS results for the presence and absence of awns diverged between the two sets of data.ConclusionsThe genotype of trait-associated SNPs identified in this study, especially those located in or close to Rc, can be developed to diagnostic SNPs to trace the origin of weedy trait occurred in the field. The difference of results from the two publicly available datasets used in this study emphasized the importance of laboratory experiments to confirm the allele mining results based on publicly available data.

Dataset Information

Using pictographs as traits to explore morphological diversity in sharks.

Publications

Using pictographs as traits to explore morphological diversity in sharks.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets