Publications

Shijia Peng, Aaron Ellison, and Charles C. Davis. 2025. “Climate Change Intensifies Plant–pollinator Mismatch and Increases Secondary Extinction Risk for Plants in Northern Latitudes”. PNAS , 122, No. 40, Pp. 11

Tadeo Ramirez-Parada, Isaac Park, Sydne Record, Charles Davis, Aaron Ellison, and Susan Mazer. 2024. “Plasticity and Not Adaptation Is the Primary Source of Temperature-Mediated Variation in Flowering Phenology in North America”. Nature Ecology & Evolution, 8, Pp. 467–476

Bruno de Medeiros, Liming Cai, Peter Flynn, Yujing Yan, Xiaoshan Duan, Lucas Marinho, Christiane Anderson, and Charles Davis. 2024. “A Universal DNA Barcode for the Tree of Life”

Charles Davis and Patrick Choisy. 2024. “Medicinal Plants Meet Modern Biodiversity Science”. Current Biology, 34, Pp. R158–R173

Charles Davis. 2024. “Collections Are Truly Priceless”. Science, 383, 6687, Pp. 1035

Shijia Peng, Tadeo Ramirez‐Parada, Susan Mazer, Sydne Record, Isaac Park, Aaron Ellison, and Charles Davis. 2024. “Incorporating Plant Phenological Responses into Species Distribution Models Reduces Estimates of Future Species Loss and Turnover”. New Phytologist, 242, 5

Isaac Park, Tadeo Ramirez‐Parada, Sydne Record, Charles Davis, Aaron Ellison, and Susan Mazer. 2024. “Herbarium Data Accurately Predict the Timing and Duration of Population‐level Flowering Displays”. Ecography, e06961

Charles C. Davis, Emily Sessa, Alan Paton, Alexandre Antonelli, and Jordan Teisher. 2024. “The Destructive Sampling Conundrum and Guidelines for Effective and Ethical Sampling of Herbaria”. EcoEvoRxiv

Santosh Rana, Hum Rana, Jacob Landis, Tianhui Kuang, Juntong Chen, Hengchang Wang, Tao Deng, Charles Davis, and Hang Sun. 2024. “Pleistocene Glaciation Advances the Cryptic Speciation of Stellera Chamaejasme L. In a Major Biodiversity Hotspot”. Journal of Integrative Plant Biology

Yujing Yan, Rute da Fonseca, Carsten Rahbek, Michael Borregaard, and Charles Davis. 2024. “A New Nuclear Phylogeny of the Tea Family (Theaceae) Unravels Rapid Radiations in Genus Camellia”. Molecular Phylogenetics and Evolution

Erika Edwards, Brent Mishler, and Charles Davis. 2024. “University Herbaria Are Uniquely Important”. EcoEvoRxiv

Liang Liu, Lili Yu, Shaoyuan Wu, Jonathan Arnold, Christopher Whalen, Charles Davis, and Scott Edwards. 2023. “Short Branch Attraction in Phylogenomic Inference under the Multispecies Coalescent”. Frontiers in Ecology and Evolution, 11

Eduardo Almeida, Silas Bossert, Bryan Danforth, Diego Porto, Felipe Freitas, Charles Davis, Elizabeth Murray, Bonnie Blaimer, Tamara Spasojevic, Patrícia Ströher, Michael Orr, Laurence Packer, Seán Brady, Michael Kuhlmann, Michael Branstetter, and Marcio Pie. 2023. “The Evolutionary History of Bees in Time and Space”. Current Biology, 33, 16

Daniel Park, Yingying Xie, Aaron Ellison, Goia Lyra, and Charles Davis. 2023. “Complex Climate‐mediated Effects of Urbanization on Plant Reproductive Phenology and Frost Risk”. New Phytologist, 239, 6

Daniel Park, Xiao Feng, Shinobu Akiyama, Marlina Ardiyani, Neida Avendaño, Zoltan Barina, Blandine Bärtschi, Manuel Belgrano, Julio Betancur, Roxali Bijmoer, Ann Bogaerts, Asunción Cano, Jiří Danihelka, Arti Garg, David Giblin, Rajib Gogoi, Ramagwai Sebola, Tomoyuki Katagiri, Jonathan A. Kennedy, Tojibaev Komil, Byoungyoon Lee, Serena Lee, Donatella Magri, Rossella Marcucci, Siro Masinde, Denis Melnikov, Patrik Mráz, Wieslaw Mulenko, Paul Musili, Geoffrey Mwachala, Burrell Nelson, Christine Niezgoda, Carla Sepúlveda, Sylvia Orli, Alan Paton, Serge Payette, Kent Perkins, Maria Ponce, Heimo Rainer, L. Rasingam, Himmah Rustiami, Natalia Shiyan, Charlotte Bjorå, James Solomon, Fred Stauffer, Alex Sumadijaya, Mélanie Thiébaut, Barbara Thiers, Hiromi Tsubota, Alison Vaughan, Risto Virtanen, Timothy Whitfeld, Dianxiang Zhang, Fernando Zuloaga, and Charles C. Davis. 2023. “The Colonial Legacy of Herbaria”. Nature Human Behavior

Giulia Albani Rochetti, Charles C. Davis, Giulia Caneva, Gianluigi Bacchetta, Guiseppe Fabrini, Guiseppe Fenu, Bruno Foggi, Gabriele Galasso, Domenico Gargano, Gianpietro Giusso Galdo, Mauro Iberite, Sara Magrini, Alfred Mayer, Andrea Mondoni, Chiara Nepi, Simone Orsenigo, Lorenzo Peruzzi, and Thomas Abeli. 2022. “A Pragmatic and Prudent Consensus on the Resurrection of Extinct Plant Species Using Herbarium Specimens”. Taxon, 71, 1, Pp. 168-77

Liming Cai, Hongrui Zhang, and Charles C. Davis. 2022. “PhyloHerb: A High-Throughput Phylogenomic Pipeline for Processing Genome Skimming Data”. Applications in Plant Sciences, 10, 3

Charles C. Davis, Goia M. Lyra, Daniel S. Park, Renata Asprino, Rogério Maruyama, Débora Torquato, Benjamin I. Cook, and Aaron M. Ellison. 2022. “New Directions in Tropical Phenology”. Trends in Ecology and Evolution, 37, 8, Pp. 683-93

Yujing Yan, Charles C. Davis, Dimitar Dimitrov, Zhiheng Wang, Carsten Rahbek, and Michael Krabbe Borregaard. 2021. “Phytogeographic History of the Tea Family Inferred through High-Resolution Phylogeny and Fossils”. Systematic Biology, 042

Liming Cai, Brian Arnold, Zhenxiang Xi, Danielle Khost, Niki Patel, Claire Hartmann, Sugumaran Manickam, Sawitree Sasirat, Lachezar Nikolov, Sarah Mathews, Timothy Sackton, and Charles Davis. 2021. “Deeply Altered Genome Architecture in the Endoparasitic Flowering Plant Sapria Himalayana Griff. (Rafflesiaceae)”. Current Biology

Emily K. Meineke, Charles C. Davis, and T. Jonathan Davies. 2021. “Phenological Sensitivity to Temperature Mediates Herbivory”. Global Change Biology

Luiza Teixeira-Costa, Charles C. Davis, and Gregorio Ceccantini. 2021. “Striking Developmental Convergence in Angiosperm Endoparasites”. American Journal of Botany , 108, 5, Pp. 1-13

Charles C. Davis, Jonathan A. Kennedy, and Christopher J. Grassa. 2021. “Back to the Future: A Refined Single-User Photostation for Massively Scaling Herbarium Digitization”. Taxon, 00, 00, Pp. 1-9

Goia M. Lyra, Cintia Iha, Christopher J. Grassa, Liming Cai, Hongrui Zhang, Christopher Lane, Nicolas Blouin, Mariana C. Oliveira, José Marcos Castro Nunes, and Charles C. Davis. 2021. “Phylogenomics, Divergence Time Estimation and Trait Evolution Provide a New Look into the Gracilariales (Rhodophyta)”. Molecular Phylogenetics and Evolution, 165

Barnabas H. Daru, T. Jonathan Davies, Charles G. Willis, Emily K. Meineke, Argo Ronk, Martin Zobel, Meelis Pärtel, Alexandre Antonelli, and Charles C. Davis. 2021. “Widespread Homogenization of Plant Communities in the Anthropocene”. Nature Communications, 12

C.J. Thorogood, L. Teixeira-Costa, G. Ceccantini, C. C. Davis, and S. J. Hiscock. 2021. “Endoparasitic Plants and Fungi Show Evolutionary Convergence across Phylogentic Divisions.”. The New Phytologist, 10, 1111

Lucas C. Marinho, Pedro Fiaschi, Moabe F. Fernandes, Liming Cai, Xiaoshan Duan, André M. Amorim, and Charles C. Davis. 2021. “Phylogenetic Relationships of Tovomita (Clusiaceae): Carpel Number and Geographic Distribution Speak Louder Than Venation Pattern”. Systematic Botany, 41, 1, Pp. 102-8

Charles C. Davis, Julien Champ, Daniel S. Park, Ian Breckheimer, Goia M. Lyra, Junxi Xie, Alexis Joly, Dharmesh Tarapore, Aaron M. Ellison, and Pierre Bonnet. 2020. “A New Method for Counting Reproductive Structures in Digitized Herbarium Specimens Using Mask R-CNN”. Frontiers in Plant Science, 11, 1129

Daniel S. Park, Charles G. Willis, Zhenxiang Xi, John T. Kartesz, Charles C. Davis, and Steven Worthington. 2020. “Machine Learning Predicts Large Scale Declines in Native Plant Phylogenetic Diversity”. New Phytologist

Jianquan Liu, Charles Davis, Xiyin Wang, Zhenxiang Xi, Zhiji Qin, Qinfeng Wang, Man Liu, Lanxing Shan, Beibei Jiao, Fanbo Meng, Xingxing Shen, Lei Zhang, Tao Ma, Ying Li, Dafu Ru, Donglei Wang, Leke Lv, Pengchuan Sun, and Yongzhi Yang. 2020. “Prickly Waterlily and Rigid Hornwort Genomes Shed Light on Early Angiosperm Evolution”. Nature Plants, 2020, Pp. 1-8