phytools: an R package for phylogenetic comparative biology (and other things)

Phylogenies and the Comparative Method

Felsenstein, J. (1985) · The American Naturalist · doi:10.1086/284325 · Cited by 9,793

The neuroactive potential of the human gut microbiota in quality of life and depression

Valles-Colomer, M., Falony, G., Darzi, Y., Tigchelaar, E. F., Wang, J., Tito, R. Y., Schiweck, C., Kurilshikov, A., Joossens, M., Wijmenga, C., et al. (2019) · Nature Microbiology · doi:10.1038/s41564-018-0337-x · Cited by 1,963

A new genomic blueprint of the human gut microbiota

Almeida, A., Mitchell, A. L., Boland, M., Forster, S. C., Gloor, G. B., Tarkowska, A., Lawley, T. D., & Finn, R. D. (2019) · Nature · doi:10.1038/s41586-019-0965-1 · Cited by 1,314

Phytools 2.0: an updated R ecosystem for phylogenetic comparative methods (and other things)

Revell, L. J. (2024) · PeerJ · doi:10.7717/peerj.16505 · Cited by 1,244

Comparative genomics reveals insights into avian genome evolution and adaptation

Zhang, G., Li, C., Li, Q., Li, B., Larkin, D. M., Lee, C., Storz, J. F., Antunes, A., Greenwold, M. J., Meredith, R. W., et al. (2014) · Science · doi:10.1126/science.1251385 · Cited by 1,055

Phylogenetic classification of bony fishes

Betancur-R, R., Wiley, E. O., Arratia, G., Acero, A., Bailly, N., Miya, M., Lecointre, G., & Ortí, G. (2017) · BMC Evolutionary Biology · doi:10.1186/s12862-017-0958-3 · Cited by 857

Efficient comparative phylogenetics on large trees

Louca, S., & Doebeli, M. (2018) · Bioinformatics · doi:10.1093/bioinformatics/btx701 · Cited by 564

Progressive Cactus is a multiple-genome aligner for the thousand-genome era

Armstrong, J., Hickey, G., Diekhans, M., Fiddes, I. T., Novak, A. M., Deran, A., Fang, Q., Xie, D., Feng, S., Stiller, J., et al. (2020) · Nature · doi:10.1038/s41586-020-2871-y · Cited by 586

Dense sampling of bird diversity increases power of comparative genomics

Feng, S., Stiller, J., Deng, Y., Armstrong, J., Fang, Q., Reeve, A. H., Xie, D., Chen, G., Guo, C., Faircloth, B. C., et al. (2020) · Nature · doi:10.1038/s41586-020-2873-9 · Cited by 459

A Primer on Phylogenetic Generalised Least Squares

Symonds, M. R. E., & Blomberg, S. P. (2014) · Modern Phylogenetic Comparative Methods and Their Application in Evolutionary Biology · doi:10.1007/978-3-662-43550-2_5 · Cited by 445

SIRT6 is responsible for more efficient DNA double-strand break repair in long-lived species

Tian, X., Firsanov, D., Zhang, Z., Cheng, Y., Luo, L., Tombline, G., Tan, R., Simon, M., Henderson, S., Steffan, J., et al. (2019) · Cell · doi:10.1016/j.cell.2019.03.043 · Cited by 353

Mega-evolutionary dynamics of the adaptive radiation of birds

Cooney, C. R., Bright, J. A., Capp, E. J. R., Chira, A. M., Hughes, E. C., Moody, C. J. A., Nouri, L. O., Varley, Z. K., & Thomas, G. H. (2017) · Nature · doi:10.1038/nature21074 · Cited by 356

Gradual assembly of avian body plan culminated in rapid rates of evolution across the dinosaur-bird transition

Brusatte, S. L., Lloyd, G. T., Wang, S. C., & Norell, M. A. (2014) · Current Biology · doi:10.1016/j.cub.2014.08.034 · Cited by 313

Ctenophore relationships and their placement as the sister group to all other animals

Whelan, N. V., Kocot, K. M., Moroz, T. P., Mukherjee, K., Williams, P., Paulay, G., Moroz, L. L., & Halanych, K. M. (2017) · Nature Ecology & Evolution · doi:10.1038/s41559-017-0331-3 · Cited by 263

A genetic, genomic, and computational resource for exploring neural circuit function

Davis, F. P., Nern, A., Picard, S., Reiser, M. B., Rubin, G. M., Eddy, S. R., & Henry, G. L. (2020) · eLife · doi:10.7554/elife.50901 · Cited by 268

Evolutionary constraint and innovation across hundreds of placental mammals

Christmas, M. J., Kaplow, I. M., Genereux, D. P., Dong, M. X., Hughes, G. M., Li, X., Sullivan, P. F., Hindle, A. G., Andrews, G., Armstrong, J. C., et al. (2023) · Science · doi:10.1126/science.abn3943 · Cited by 292

Epigenetic encoding, heritability and plasticity of glioma transcriptional cell states

Chaligne, R., Gaiti, F., Silverbush, D., Schiffman, J. S., Weisman, H. R., Kluegel, L., Gritsch, S., Deochand, S. D., Gonzalez Castro, L. N., Richman, A. R., et al. (2021) · Nature Genetics · doi:10.1038/s41588-021-00927-7 · Cited by 258

Phylogenomics provides a robust topology of the major cnidarian lineages and insights on the origins of key organismal traits

Kayal, E., Bentlage, B., Sabrina Pankey, M., Ohdera, A. H., Medina, M., Plachetzki, D. C., Collins, A. G., & Ryan, J. F. (2018) · BMC Evolutionary Biology · doi:10.1186/s12862-018-1142-0 · Cited by 255

Cancer risk across mammals

Vincze, O., Colchero, F., Lemaître, J.-F., Conde, D. A., Pavard, S., Bieuville, M., Urrutia, A. O., Ujvari, B., Boddy, A. M., Maley, C. C., et al. (2022) · Nature · doi:10.1038/s41586-021-04224-5 · Cited by 226

Giant lungfish genome elucidates the conquest of land by vertebrates

Meyer, A., Schloissnig, S., Franchini, P., Du, K., Woltering, J. M., Irisarri, I., Wong, W. Y., Nowoshilow, S., Kneitz, S., Kawaguchi, A., et al. (2021) · Nature · doi:10.1038/s41586-021-03198-8 · Cited by 211

Codiversification of gut microbiota with humans

Suzuki, T. A., Fitzstevens, J. L., Schmidt, V. T., Enav, H., Huus, K. E., Mbong Ngwese, M., Grießhammer, A., Pfleiderer, A., Adegbite, B. R., Zinsou, J. F., et al. (2022) · Science · doi:10.1126/science.abm7759 · Cited by 210

Quantifying and Comparing Phylogenetic Evolutionary Rates for Shape and Other High-Dimensional Phenotypic Data

Adams, D. C. (2014) · Systematic Biology · doi:10.1093/sysbio/syt105 · Cited by 207

The ‘biomineralization toolkit’ and the origin of animal skeletons

Murdock, D. J. E. (2020) · Biological Reviews · doi:10.1111/brv.12614 · Cited by 177

Distinct longevity mechanisms across and within species and their association with aging

Tyshkovskiy, A., Ma, S., Shindyapina, A. V., Tikhonov, S., Lee, S.-G., Bozaykut, P., Castro, J. P., Seluanov, A., Schork, N. J., Gorbunova, V., et al. (2023) · Cell · doi:10.1016/j.cell.2023.05.002 · Cited by 162

Agouti-related peptide 2 facilitates convergent evolution of stripe patterns across cichlid fish radiations

Kratochwil, C. F., Liang, Y., Gerwin, J., Woltering, J. M., Urban, S., Henning, F., Machado-Schiaffino, G., Hulsey, C. D., & Meyer, A. (2018) · Science · doi:10.1126/science.aao6809 · Cited by 157

Early Evolution of Modern Birds Structured by Global Forest Collapse at the End-Cretaceous Mass Extinction

Field, D. J., Bercovici, A., Berv, J. S., Dunn, R., Fastovsky, D. E., Lyson, T. R., Vajda, V., & Gauthier, J. A. (2018) · Current Biology · doi:10.1016/j.cub.2018.04.062 · Cited by 150

Dynamic evolutionary change in post-Paleozoic echinoids and the importance of scale when interpreting changes in rates of evolution

Hopkins, M. J., & Smith, A. B. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1418153112 · Cited by 133

Global phylogeny of Treponema pallidum lineages reveals recent expansion and spread of contemporary syphilis

Beale, M. A., Marks, M., Cole, M. J., Lee, M.-K., Pitt, R., Ruis, C., Balla, E., Crucitti, T., Ewens, M., Fernández-Naval, C., et al. (2021) · Nature Microbiology · doi:10.1038/s41564-021-01000-z · Cited by 135

A positive correlation between GC content and growth temperature in prokaryotes

Hu, E.-Z., Lan, X.-R., Liu, Z.-L., Gao, J., & Niu, D.-K. (2022) · BMC Genomics · doi:10.1186/s12864-022-08353-7 · Cited by 135

Macroevolutionary shift in the size of amphibian genomes and the role of life history and climate

Liedtke, H. C., Gower, D. J., Wilkinson, M., & Gomez-Mestre, I. (2018) · Nature Ecology & Evolution · doi:10.1038/s41559-018-0674-4 · Cited by 130

Indigenous knowledge networks in the face of global change

Cámara-Leret, R., Fortuna, M. A., & Bascompte, J. (2019) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1821843116 · Cited by 127

Who let the CAT out of the bag? Accurately dealing with substitutional heterogeneity in phylogenomic analyses

Whelan, N. V., & Halanych, K. M. (2016) · Systematic Biology · doi:10.1093/sysbio/syw084 · Cited by 96

The skull roof tracks the brain during the evolution and development of reptiles including birds

Fabbri, M., Mongiardino Koch, N., Pritchard, A. C., Hanson, M., Hoffman, E., Bever, G. S., Balanoff, A. M., Morris, Z. S., Field, D. J., Camacho, J., et al. (2017) · Nature Ecology & Evolution · doi:10.1038/s41559-017-0288-2 · Cited by 112

Brain reorganization, not relative brain size, primarily characterizes anthropoid brain evolution

Smaers, J. B., & Soligo, C. (2013) · Proceedings of the Royal Society B: Biological Sciences · doi:10.1098/rspb.2013.0269 · Cited by 112

Ancestral state reconstruction of ontogeny supports a bilaterian affinity for Dickinsonia

Gold, D. A., Runnegar, B., Gehling, J. G., & Jacobs, D. K. (2015) · Evolution & Development · doi:10.1111/ede.12168 · Cited by 99

Location-level processes drive the establishment of alien bird populations worldwide

Redding, D. W., Pigot, A. L., Dyer, E. E., Şekercioğlu, Ç. H., Kark, S., & Blackburn, T. M. (2019) · Nature · doi:10.1038/s41586-019-1292-2 · Cited by 99

Pan-mammalian analysis of molecular constraints underlying extended lifespan

Kowalczyk, A., Partha, R., Clark, N. L., & Chikina, M. (2020) · eLife · doi:10.7554/elife.51089 · Cited by 95

Cell culture-based profiling across mammals reveals DNA repair and metabolism as determinants of species longevity

Ma, S., Upneja, A., Galecki, A., Tsai, Y.-M., Burant, C. F., Raskind, S., Zhang, Q., Zhang, Z. D., Seluanov, A., Gorbunova, V., et al. (2016) · eLife · doi:10.7554/elife.19130 · Cited by 89

Radiation of nitrogen‐metabolizing enzymes across the tree of life tracks environmental transitions in Earth history

Parsons, C., Stüeken, E. E., Rosen, C. J., Mateos, K., & Anderson, R. E. (2021) · Geobiology · doi:10.1111/gbi.12419 · Cited by 91

Abundance and co-occurrence of extracellular capsules increase environmental breadth: Implications for the emergence of pathogens

Rendueles, O., Garcia-Garcerà, M., Néron, B., Touchon, M., & Rocha, E. P. C. (2017) · PLOS Pathogens · doi:10.1371/journal.ppat.1006525 · Cited by 89

A new Jurassic scansoriopterygid and the loss of membranous wings in theropod dinosaurs

Wang, M., O’Connor, J. K., Xu, X., & Zhou, Z. (2019) · Nature · doi:10.1038/s41586-019-1137-z · Cited by 82

Comparative bioacoustics: a roadmap for quantifying and comparing animal sounds across diverse taxa

Odom, K. J., Araya‐Salas, M., Morano, J. L., Ligon, R. A., Leighton, G. M., Taff, C. C., Dalziell, A. H., Billings, A. C., Germain, R. R., Pardo, M., et al. (2021) · Biological Reviews · doi:10.1111/brv.12695 · Cited by 81

Evolutionary dynamics of genome size and content during the adaptive radiation of heliconiini butterflies

Cicconardi, F., Milanetti, E., Pinheiro de Castro, E. C., Mazo-Vargas, A., Van Belleghem, S. M., Ruggieri, A. A., Rastas, P., Hanly, J., Evans, E., Jiggins, C. D., et al. (2023) · Nature Communications · doi:10.1038/s41467-023-41412-5 · Cited by 81

EVOLUTION OF PAEDOMORPHOSIS IN PLETHODONTID SALAMANDERS: ECOLOGICAL CORRELATES AND RE-EVOLUTION OF METAMORPHOSIS

Bonett, R. M., Steffen, M. A., Lambert, S. M., Wiens, J. J., & Chippindale, P. T. (2014) · Evolution · doi:10.1111/evo.12274 · Cited by 79

Wing bone geometry reveals active flight in Archaeopteryx

Voeten, D. F. A. E., Cubo, J., de Margerie, E., Röper, M., Beyrand, V., Bureš, S., Tafforeau, P., & Sanchez, S. (2018) · Nature Communications · doi:10.1038/s41467-018-03296-8 · Cited by 77

Evolutionary and cardio-respiratory physiology of air-breathing and amphibious fishes

Damsgaard, C., Baliga, V. B., Bates, E., Burggren, W., McKenzie, D. J., Taylor, E., & Wright, P. A. (2020) · Acta Physiologica · doi:10.1111/apha.13406 · Cited by 71

Biological processes modulating longevity across primates: a phylogenetic genome-phenome analysis

Muntané, G., Farré, X., Rodríguez, J. A., Pegueroles, C., Hughes, D. A., de Magalhães, J. P., Gabaldón, T., & Navarro, A. (2018) · Molecular Biology and Evolution · doi:10.1093/molbev/msy105 · Cited by 73

Bayesian Detection of Convergent Rate Changes of Conserved Noncoding Elements on Phylogenetic Trees

Hu, Z., Sackton, T. B., Edwards, S. V., & Liu, J. S. (2019) · Molecular Biology and Evolution · doi:10.1093/molbev/msz049 · Cited by 69

Bacterial lifestyle shapes pangenomes

Dewar, A. E., Hao, C., Belcher, L. J., Ghoul, M., & West, S. A. (2024) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2320170121 · Cited by 57

Surface frustration re-patterning underlies the structural landscape and evolvability of fungal orphan candidate effectors

(2023) · doi:10.1038/s41467-023-40949-9 · Cited by 57

Survival and selection biases in early animal evolution and a source of systematic overestimation in molecular clocks

Budd, G. E., & Mann, R. P. (2020) · Interface Focus · doi:10.1098/rsfs.2019.0110 · Cited by 54

Contrasting impacts of competition on ecological and social trait evolution in songbirds

Drury, J. P., Tobias, J. A., Burns, K. J., Mason, N. A., Shultz, A. J., & Morlon, H. (2018) · PLOS Biology · doi:10.1371/journal.pbio.2003563 · Cited by 55

Low scaling of a life history variable: analysing eutherian gestation periods with and without phylogeny-informed statistics

Clauss, M., Dittmann, M. T., Müller, D. W. H., Zerbe, P., & Codron, D. (2014) · Mammalian Biology · doi:10.1016/j.mambio.2013.01.002 · Cited by 54

Differences in cognitive abilities among primates are concentrated on G: Phenotypic and phylogenetic comparisons with two meta-analytical databases

Fernandes, H. B. F., Woodley, M. A., & te Nijenhuis, J. (2014) · Intelligence · doi:10.1016/j.intell.2014.07.007 · Cited by 50

Microsatellite landscape evolutionary dynamics across 450 million years of vertebrate genome evolution

Adams, R. H., Blackmon, H., Reyes-Velasco, J., Schield, D. R., Card, D. C., Andrew, A. L., Waynewood, N., & Castoe, T. A. (2016) · Genome · doi:10.1139/gen-2015-0124 · Cited by 50

Conoid extrusion regulates glideosome assembly to control motility and invasion in Apicomplexa

Dos Santos Pacheco, N., Brusini, L., Haase, R., Tosetti, N., Maco, B., Brochet, M., Vadas, O., & Soldati-Favre, D. (2022) · Nature Microbiology · doi:10.1038/s41564-022-01212-x · Cited by 46

<tt>windex</tt> : Analyzing Convergent Evolution Using the Wheatsheaf Index in R

Arbuckle, K., & Minter, A. (2015) · Evolutionary Bioinformatics · doi:10.4137/ebo.s20968 · Cited by 45

Virtual ancestor reconstruction: Revealing the ancestor of modern humans and Neandertals

Mounier, A., & Mirazón Lahr, M. (2016) · Journal of Human Evolution · doi:10.1016/j.jhevol.2015.11.002 · Cited by 42

Genetic exchanges are more frequent in bacteria encoding capsules

Rendueles, O., de Sousa, J. A. M., Bernheim, A., Touchon, M., & Rocha, E. P. C. (2018) · PLOS Genetics · doi:10.1371/journal.pgen.1007862 · Cited by 41

Mammalian intestinal allometry, phylogeny, trophic level and climate

Duque-Correa, M. J., Codron, D., Meloro, C., McGrosky, A., Schiffmann, C., Edwards, M. S., & Clauss, M. (2021) · Proceedings of the Royal Society B: Biological Sciences · doi:10.1098/rspb.2020.2888 · Cited by 43

Metamorphosis Is Ancestral for Crown Euarthropods, and Evolved in the Cambrian or Earlier

Wolfe, J. M. (2017) · Integrative and Comparative Biology · doi:10.1093/icb/icx039 · Cited by 35

Ocular pigmentation in humans, great apes, and gibbons is not suggestive of communicative functions

Caspar, K. R., Biggemann, M., Geissmann, T., & Begall, S. (2021) · Scientific Reports · doi:10.1038/s41598-021-92348-z · Cited by 38

Comparing evolutionary rates between trees, clades and traits

Revell, L. J., González‐Valenzuela, L. E., Alfonso, A., Castellanos‐García, L. A., Guarnizo, C. E., & Crawford, A. J. (2018) · Methods in Ecology and Evolution · doi:10.1111/2041-210x.12977 · Cited by 38

Integrative taxonomy clarifies the evolution of a cryptic primate clade

van Elst, T., Sgarlata, G. M., Schüßler, D., Tiley, G. P., Poelstra, J. W., Scheumann, M., Blanco, M. B., Aleixo-Pais, I. G., Rina Evasoa, M., Ganzhorn, J. U., et al. (2024) · Nature Ecology & Evolution · doi:10.1038/s41559-024-02547-w · Cited by 37

The evolution of ontogenetic allometric trajectories in mammalian domestication

Wilson, L. A. B. (2018) · Evolution · doi:10.1111/evo.13464 · Cited by 34

Mesozoic origin of coleoid cephalopods and their abrupt shifts of diversification patterns

López-Córdova, D. A., Avaria-Llautureo, J., Ulloa, P. M., Braid, H. E., Revell, L. J., Fuchs, D., & Ibáñez, C. M. (2022) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2021.107331 · Cited by 34

Functional constraints on the number and shape of flight feathers

Kiat, Y., & O’Connor, J. K. (2024) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2306639121 · Cited by 30

Morphological Disparity of the Humerus in Modern Birds

Serrano, F. J., Costa-Pérez, M., Navalón, G., & Martín-Serra, A. (2020) · Diversity · doi:10.3390/d12050173 · Cited by 30

Structural screens identify candidate human homologs of insect chemoreceptors and cryptic Drosophila gustatory receptor-like proteins

(2023) · doi:10.7554/elife.85537 · Cited by 28

Investigating the role of body size, ecology, and behavior in anuran eye size evolution

Huang, C. H., Zhong, M. J., Liao, W. B., & Kotrschal, A. (2019) · Evolutionary Ecology · doi:10.1007/s10682-019-09993-0 · Cited by 27

Molecular Phylogeny Reveals High Diversity, Geographic Structure and Limited Ranges in Neotenic Net-Winged Beetles Platerodrilus (Coleoptera: Lycidae)

Masek, M., Palata, V., Bray, T. C., & Bocak, L. (2015) · PLOS ONE · doi:10.1371/journal.pone.0123855 · Cited by 27

The Birth-and-Death Evolution of Cytochrome P450 Genes in Bees

Darragh, K., Nelson, D. R., & Ramírez, S. R. (2021) · Genome Biology and Evolution · doi:10.1093/gbe/evab261 · Cited by 27

Rapid maximum likelihood ancestral state reconstruction of continuous characters: A rerooting-free algorithm

Goolsby, E. W. (2017) · Ecology and Evolution · doi:10.1002/ece3.2837 · Cited by 24

Growth and miniaturization among alvarezsauroid dinosaurs

Qin, Z., Zhao, Q., Choiniere, J. N., Clark, J. M., Benton, M. J., & Xu, X. (2021) · Current Biology · doi:10.1016/j.cub.2021.06.013 · Cited by 25

Evolution of a soft‐tissue foraging adaptation in African cichlids: Roles for novelty, convergence, and constraint

Conith, M. R., Conith, A. J., & Albertson, R. C. (2019) · Evolution · doi:10.1111/evo.13824 · Cited by 23

Remote homolog detection places insect chemoreceptors in a cryptic protein superfamily spanning the tree of life

Himmel, N. J., Moi, D., & Benton, R. (2023) · Current Biology · doi:10.1016/j.cub.2023.10.008 · Cited by 23

Community assembly, functional traits, and phylogeny in Himalayan river birds

Sinha, A., Chatterjee, N., Krishnamurthy, R., & Ormerod, S. J. (2022) · Ecology and Evolution · doi:10.1002/ece3.9012 · Cited by 21

Evolutionary Sample Size and Consilience in Phylogenetic Comparative Analysis

Gardner, J. D., & Organ, C. L. (2021) · Systematic Biology · doi:10.1093/sysbio/syab017 · Cited by 21

Bacterial PncA improves diet-induced NAFLD in mice by enabling the transition from nicotinamide to nicotinic acid

Feng, S., Guo, L., Wang, H., Yang, S., & Liu, H. (2023) · Communications Biology · doi:10.1038/s42003-023-04613-8 · Cited by 20

Arboreal ant abundance tracks primary productivity in an Amazonian whitewater river system

Pringle, E. G., Santos, T. F. D., Gonçalves, M. S., Hawes, J. E., Peres, C. A., & Baccaro, F. B. (2019) · Ecosphere · doi:10.1002/ecs2.2902 · Cited by 19

Does body mass restrict call peak frequency in echolocating bats?

López‐Cuamatzi, I. L., Vega‐Gutiérrez, V. H., Cabrera‐Campos, I., Ruiz‐Sanchez, E., Ayala‐Berdon, J., & Saldaña‐Vázquez, R. A. (2020) · Mammal Review · doi:10.1111/mam.12196 · Cited by 19

Structural complexity of hunting habitat and territoriality increase the reversed sexual size dimorphism in diurnal raptors

Pérez‐Camacho, L., Martínez‐Hesterkamp, S., Rebollo, S., García‐Salgado, G., & Morales‐Castilla, I. (2018) · Journal of Avian Biology · doi:10.1111/jav.01745 · Cited by 18

Bison Reintroduction to Mixed-Grass Prairie Is Associated With Increases in Bird Diversity and Cervid Occupancy in Riparian Areas

Boyce, A. J., Shamon, H., & McShea, W. J. (2022) · Frontiers in Ecology and Evolution · doi:10.3389/fevo.2022.821822 · Cited by 18

Juvenile ecology drives adult morphology in two insect orders

Rühr, P. T., van de Kamp, T., Faragó, T., Hammel, J. U., Wilde, F., Borisova, E., Edel, C., Frenzel, M., Baumbach, T., & Blanke, A. (2021) · Proceedings of the Royal Society B: Biological Sciences · doi:10.1098/rspb.2021.0616 · Cited by 16

Reorganization of the theropod wrist preceded the origin of avian flight

Napoli, J. G., Fabbri, M., Ruebenstahl, A. A., O’Connor, J. K., Bhullar, B.-A. S., & Norell, M. A. (2025) · Nature · doi:10.1038/s41586-025-09232-3 · Cited by 17

RERconverge Expansion: Using Relative Evolutionary Rates to Study Complex Categorical Trait Evolution

Redlich, R., Kowalczyk, A., Tene, M., Sestili, H. H., Foley, K., Saputra, E., Clark, N., Chikina, M., Meyer, W. K., & Pfenning, A. R. (2024) · Molecular Biology and Evolution · doi:10.1093/molbev/msae210 · Cited by 14

Discovering genotype–phenotype relationships with machine learning and the Visual Physiology Opsin Database ( VPOD )

(2024) · doi:10.1093/gigascience/giae073 · Cited by 13

Differential expansion and retention patterns of LRR‐RLK genes across plant evolution

Kileeg, Z., Haldar, A., Khan, H., Qamar, A., & Mott, G. A. (2023) · Plant Direct · doi:10.1002/pld3.556 · Cited by 13

Pigment pattern morphospace of Danio fishes: evolutionary diversification and mutational effects

McCluskey, B. M., Liang, Y., Lewis, V. M., Patterson, L. B., & Parichy, D. M. (2021) · Biology Open · doi:10.1242/bio.058814 · Cited by 12

Response to Tcherkez and Farquhar: Rubisco adaptation is more limited by phylogenetic constraint than by catalytic trade-off

Bouvier, J. W., & Kelly, S. (2023) · Journal of Plant Physiology · doi:10.1016/j.jplph.2023.154021 · Cited by 11

The roles of species’ relatedness and climate of origin in determining optical leaf traits over a large set of taxa growing at high elevation and high latitude

Hartikainen, S. M., & Robson, T. M. (2022) · Frontiers in Plant Science · doi:10.3389/fpls.2022.1058162 · Cited by 10

The effectiveness of protected areas in the Paraná-Paraguay basin in preserving multiple facets of freshwater fish diversity under climate change

Oliveira, A. G. D., Peláez, O., & Agostinho, A. A. (2021) · Neotropical Ichthyology · doi:10.1590/1982-0224-2021-0034 · Cited by 10

Recurrent erosion of COA1/MITRAC15 exemplifies conditional gene dispensability in oxidative phosphorylation

Shinde, S. S., Sharma, S., Teekas, L., Sharma, A., & Vijay, N. (2021) · Scientific Reports · doi:10.1038/s41598-021-04077-y · Cited by 10

Scleral appearance is not a correlate of domestication in mammals

Caspar, K. R., Hüttner, L., & Begall, S. (2023) · Zoological Letters · doi:10.1186/s40851-023-00210-z · Cited by 8

The neoteny goldilocks zone: The evolution of neoteny in Ambystoma

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