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October 2021

The Cenozoic marked a period of dramatic ecological opportunity in Earth history due to the extinction of non-avian dinosaurs as well as to long-term physiographic changes that created new biogeographic theaters and new habitats. Snakes underwent massive ecological diversification during this period, repeatedly evolving novel dietary adaptations and prey preferences. The evolutionary tempo and mode of these trophic ecological changes remain virtually unknown, especially compared with co-radiating lineages of birds and mammals that are simultaneously predators and prey of snakes. Grundler and Rabosky assemble a dataset on snake diets (34,060 observations on the diets of 882 species) to investigate the history and dynamics of the multidimensional trophic niche during the global radiation of snakes. Their results indicate that repeated transformational shifts in dietary ecology are important drivers of adaptive radiation in snakes and provide a framework for analyzing and visualizing the evolution of complex ecological phenotypes on phylogenetic trees. The image shows the full set of diet states and species assigned to each state, showing interspecific variation in sampled prey items assigned to a particular diet state. Colors of small circles indicate prey group, magnitude of circles indicates number of observations, colors of large circle indicate distinct multivariate trophic resource states.

Image Credit: Grundler and Rabosky

Essays

A field guide to cultivating computational biology

Gregory P. Way, Casey S. Greene, Piero Carninci, Benilton S. Carvalho, Michiel de Hoon, Stacey D. Finley, Sara J. C. Gosline, Kim-Anh Lȇ Cao, Jerry S. H. Lee, Luigi Marchionni, Nicolas Robine, Suzanne S. Sindi, Fabian J. Theis, Jean Y. H. Yang, Anne E. Carpenter, Elana J. Fertig

The microbiome impacts host hybridization and speciation

Asia K. Miller, Camille S. Westlake, Karissa L. Cross, Brittany A. Leigh, Seth R. Bordenstein

Research Articles

Individual bacteria in structured environments rely on phenotypic resistance to phage

Erin L. Attrill, Rory Claydon, Urszula Łapińska, Mario Recker, Sean Meaden, Aidan T. Brown, Edze R. Westra, Sarah V. Harding, Stefano Pagliara

Understanding degraded speech leads to perceptual gating of a brainstem reflex in human listeners

Heivet Hernández-Pérez, Jason Mikiel-Hunter, David McAlpine, Sumitrajit Dhar, Sriram Boothalingam, Jessica J. M. Monaghan, Catherine M. McMahon

Corollary discharge enables proprioception from lateral line sensory feedback

Dimitri A. Skandalis, Elias T. Lunsford, James C. Liao

The glucose-sensing transcription factor MLX balances metabolism and stress to suppress apoptosis and maintain spermatogenesis

Patrick A. Carroll, Brian W. Freie, Pei Feng Cheng, Sivakanthan Kasinathan, Haiwei Gu, Theresa Hedrich, James A. Dowdle, Vivek Venkataramani, Vijay Ramani, Xiaoying Wu, Daniel Raftery, Jay Shendure, Donald E. Ayer, Charles H. Muller, Robert N. Eisenman

Inhibition of protein N-myristoylation blocks Plasmodium falciparum intraerythrocytic development, egress and invasion

Anja C. Schlott, Ellen Knuepfer, Judith L. Green, Philip Hobson, Aaron J. Borg, Julia Morales-Sanfrutos, Abigail J. Perrin, Catherine Maclachlan, Lucy M. Collinson, Ambrosius P. Snijders, Edward W. Tate, Anthony A. Holder

The Plasmodium NOT1-G paralogue is an essential regulator of sexual stage maturation and parasite transmission

Kevin J. Hart, B. Joanne Power, Kelly T. Rios, Aswathy Sebastian, Scott E. Lindner

On the optimality of the enzyme–substrate relationship in bacteria

Hugo Dourado, Matteo Mori, Terence Hwa, Martin J. Lercher

Plasmid fitness costs are caused by specific genetic conflicts enabling resolution by compensatory mutation

James P. J. Hall, Rosanna C. T. Wright, Ellie Harrison, Katie J. Muddiman, A. Jamie Wood, Steve Paterson, Michael A. Brockhurst

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Short Reports

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Methods and Resources

A phylogenomic framework for charting the diversity and evolution of giant viruses

Frank O. Aylward, Mohammad Moniruzzaman, Anh D. Ha, Eugene V. Koonin

Meta-Research Article

Tapping into non-English-language science for the conservation of global biodiversity

Tatsuya Amano, Violeta Berdejo-Espinola, Alec P. Christie, Kate Willott, Munemitsu Akasaka, András Báldi, Anna Berthinussen, Sandro Bertolino, Andrew J. Bladon, Min Chen, Chang-Yong Choi, Magda Bou Dagher Kharrat, Luis G. de Oliveira, Perla Farhat, Marina Golivets, Nataly Hidalgo Aranzamendi, Kerstin Jantke, Joanna Kajzer-Bonk, M. Çisel Kemahlı Aytekin, Igor Khorozyan, Kensuke Kito, Ko Konno, Da-Li Lin, Nick Littlewood, Yang Liu, Yifan Liu, Matthias-Claudio Loretto, Valentina Marconi, Philip A. Martin, William H. Morgan, Juan P. Narváez-Gómez, Pablo Jose Negret, Elham Nourani, Jose M. Ochoa Quintero, Nancy Ockendon, Rachel Rui Ying Oh, Silviu O. Petrovan, Ana C. Piovezan-Borges, Ingrid L. Pollet, Danielle L. Ramos, Ana L. Reboredo Segovia, A. Nayelli Rivera-Villanueva, Ricardo Rocha, Marie-Morgane Rouyer, Katherine A. Sainsbury, Richard Schuster, Dominik Schwab, Çağan H. Şekercioğlu, Hae-Min Seo, Gorm Shackelford, Yushin Shinoda, Rebecca K. Smith, Shan-dar Tao, Ming-shan Tsai, Elizabeth H. M. Tyler, Flóra Vajna, José Osvaldo Valdebenito, Svetlana Vozykova, Paweł Waryszak, Veronica Zamora-Gutierrez, Rafael D. Zenni, Wenjun Zhou, William J. Sutherland