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Wilf P, Wing SL, Meyer HW, Rose JA, Saha R, Serre T, Cúneo NR, Donovan MP, Erwin DM, Gandolfo MA, González-Akre E, Herrera F, Hu S, Iglesias A, Johnson KR, Karim TS, Zou X. An image dataset of cleared, x-rayed, and fossil leaves vetted to plant family for human and machine learning. PHYTOKEYS 2021; 187:93-128. [PMID: 35068970 PMCID: PMC8702526 DOI: 10.3897/phytokeys.187.72350] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2021] [Accepted: 12/05/2021] [Indexed: 05/04/2023]
Abstract
Leaves are the most abundant and visible plant organ, both in the modern world and the fossil record. Identifying foliage to the correct plant family based on leaf architecture is a fundamental botanical skill that is also critical for isolated fossil leaves, which often, especially in the Cenozoic, represent extinct genera and species from extant families. Resources focused on leaf identification are remarkably scarce; however, the situation has improved due to the recent proliferation of digitized herbarium material, live-plant identification applications, and online collections of cleared and fossil leaf images. Nevertheless, the need remains for a specialized image dataset for comparative leaf architecture. We address this gap by assembling an open-access database of 30,252 images of vouchered leaf specimens vetted to family level, primarily of angiosperms, including 26,176 images of cleared and x-rayed leaves representing 354 families and 4,076 of fossil leaves from 48 families. The images maintain original resolution, have user-friendly filenames, and are vetted using APG and modern paleobotanical standards. The cleared and x-rayed leaves include the Jack A. Wolfe and Leo J. Hickey contributions to the National Cleared Leaf Collection and a collection of high-resolution scanned x-ray negatives, housed in the Division of Paleobotany, Department of Paleobiology, Smithsonian National Museum of Natural History, Washington D.C.; and the Daniel I. Axelrod Cleared Leaf Collection, housed at the University of California Museum of Paleontology, Berkeley. The fossil images include a sampling of Late Cretaceous to Eocene paleobotanical sites from the Western Hemisphere held at numerous institutions, especially from Florissant Fossil Beds National Monument (late Eocene, Colorado), as well as several other localities from the Late Cretaceous to Eocene of the Western USA and the early Paleogene of Colombia and southern Argentina. The dataset facilitates new research and education opportunities in paleobotany, comparative leaf architecture, systematics, and machine learning.
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Affiliation(s)
- Peter Wilf
- Department of Geosciences and Earth and Environmental Systems Institute, Pennsylvania State University, University Park, PA 16802, USAPennsylvania State UniversityUniversity ParkUnited States of America
| | - Scott L. Wing
- Department of Paleobiology, Smithsonian Institution, Washington, DC 20013, USADepartment of Paleobiology, Smithsonian InstitutionWashington, DCUnited States of America
| | - Herbert W. Meyer
- Florissant Fossil Beds National Monument, National Park Service, Florissant, CO 80816, USAFlorissant Fossil Beds National Monument, National Park ServiceFlorissantUnited States of America
| | - Jacob A. Rose
- School of Engineering, Brown University, Providence, RI 02912, USABrown UniversityProvidenceUnited States of America
| | - Rohit Saha
- Department of Cognitive, Linguistic and Psychological Sciences, Carney Institute for Brain Science, Brown University, Providence, RI 02912, USAMuseo Paleontológico E. FeruglioTrelewArgentina
| | - Thomas Serre
- Department of Cognitive, Linguistic and Psychological Sciences, Carney Institute for Brain Science, Brown University, Providence, RI 02912, USAMuseo Paleontológico E. FeruglioTrelewArgentina
| | - N. Rubén Cúneo
- CONICET-Museo Paleontológico Egidio Feruglio, Trelew 9100, Chubut, Argentinaepartment of Paleobotany and Paleoecology, Cleveland Museum of Natural HistoryClevelandUnited States of America
| | - Michael P. Donovan
- Department of Paleobotany and Paleoecology, Cleveland Museum of Natural History, Cleveland, OH 44106, USAUniversity of California-BerkeleyBerkeleyUnited States of America
| | - Diane M. Erwin
- University of California-Berkeley, Museum of Paleontology, Berkeley, CA 94720, USACornell UniversityIthacaUnited States of America
| | - María A. Gandolfo
- LH Bailey Hortorium, Plant Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USASmithsonian Conservation Biology Institute, National Zoological Park,Front RoyalUnited States of America
| | - Erika González-Akre
- Conservation Ecology Center, Smithsonian Conservation Biology Institute, National Zoological Park, Front Royal, VA, 22630, USANegaunee Integrative Research Center, Field Museum of Natural HistoryChicagoUnited States of America
| | - Fabiany Herrera
- Negaunee Integrative Research Center, Field Museum of Natural History, Chicago, IL, 60605, USAYale UniversityNew HavenUnited States of America
| | - Shusheng Hu
- Division of Paleobotany, Peabody Museum of Natural History, Yale University, New Haven, CT 06520, USAInstituto de Investigaciones en Biodiversidad y Ambiente INIBIOMA, CONICET-UNComaSan Carlos de BarilocheArgentina
| | - Ari Iglesias
- Instituto de Investigaciones en Biodiversidad y Ambiente INIBIOMA, CONICET-UNComa, San Carlos de Bariloche 8400, Río Negro, ArgentinaDepartment of Paleobiology, Smithsonian InstitutionWashingtonUnited States of America
| | - Kirk R. Johnson
- Department of Paleobiology, Smithsonian Institution, Washington, DC 20013, USADepartment of Paleobiology, Smithsonian InstitutionWashington, DCUnited States of America
| | - Talia S. Karim
- University of Colorado Museum of Natural History, Boulder, CO 80503, USAUniversity of Colorado Museum of Natural HistoryBoulderUnited States of America
| | - Xiaoyu Zou
- Department of Geosciences and Earth and Environmental Systems Institute, Pennsylvania State University, University Park, PA 16802, USAPennsylvania State UniversityUniversity ParkUnited States of America
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