ArticleFrontiers in plant science2018
Topological Data Analysis as a Morphometric Method: Using Persistent Homology to Demarcate a Leaf Morphospace.
Article in Frontiers in plant science, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
- Heat alters fruit morphology and severely limits reproduction but not growth in a widespread urban weed.bioRxiv : the preprint server for biology · 2026Article
- Three-dimensional phenotyping: Technological advances and applications in genomics-assisted crop breeding.Plant communications · 2026Review
- Rho GTPase overexpression impacts leaf internal architecture and mesophyll conductance in Arabidopsis.The New phytologist · 2025Article
- Innovative multi-scale approach to study the phenotypic variation of seedling leaves in four weedy Amaranthus species.Plant biology (Stuttgart, Germany) · 2025Article
- Elongate dendritic phytoliths as indicators for cereal identification and domestication: exploring a 3D morphometric approach.Frontiers in plant science · 2025Article
- Herbarium specimens reveal links between leaf shape of Capsella bursa-pastoris and climate.American journal of botany · 2024Article
- Topological data analysis reveals a core gene expression backbone that defines form and function across flowering plants.PLoS biology · 2023Article
- Model-based plant phenomics on morphological traits using morphometric descriptors.Breeding science · 2022Article
- A predicted developmental and evolutionary morphospace for grapevine leaves.Quantitative plant biology · 2022Article
- Using Cameras for Precise Measurement of Two-Dimensional Plant Features: CASS.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Quantitative dissection of color patterning in the foliar ornamental coleus.Plant physiology · 2021Article
- Geometric and topological approaches to shape variation inRoyal Society open science · 2021Article
- MFCIS: an automatic leaf-based identification pipeline for plant cultivars using deep learning and persistent homology.Horticulture research · 2021Article
- Vein-to-blade ratio is an allometric indicator of leaf size and plasticity.American journal of botany · 2021Article
- A Grand Challenge in Development and Evodevo: Quantifying the Role of Development in Evolution.Frontiers in plant science · 2021Article
- Applications of Topological Data Analysis in Oncology.Frontiers in artificial intelligence · 2021Review
- Composite modeling of leaf shape along shoots discriminatesApplications in plant sciences · 2020Article
- The shape of things to come: Topological data analysis and biology, from molecules to organisms.Developmental dynamics : an official publication of the American Association of Anatomists · 2020Review
- Multi-dimensional machine learning approaches for fruit shape phenotyping in strawberry.GigaScience · 2020Article
- Characterizing 3D inflorescence architecture in grapevine using X-ray imaging and advanced morphometrics: implications for understanding cluster density.Journal of experimental botany · 2019Article
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36 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Current morphometric methods that comprehensively measure shape cannot compare the disparate leaf shapes found in seed plants and are sensitive to processing artifacts. We explore the use of persistent homology, a topological method applied as a filtration across simplicial complexes (or more simply, a method to measure topological features of spaces across different spatial resolutions), to overcome these limitations. The described method isolates subsets of shape features and measures the spatial relationship of neighboring pixel densities in a shape. We apply the method to the analysis of 182,707 leaves, both published and unpublished, representing 141 plant families collected from 75 sites throughout the world. By measuring leaves from throughout the seed plants using persistent homology, a defined morphospace comparing all leaves is demarcated. Clear differences in shape between major phylogenetic groups are detected and estimates of leaf shape diversity within plant families are made. The approach predicts plant family above chance. The application of a persistent homology method, using topological features, to measure leaf shape allows for a unified morphometric framework to measure plant form, including shapes, textures, patterns, and branching architectures.
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