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Evolutionary traps occur when rapid environmental change leads animals to prefer resources (e.g., food, mates, habitats) that reduce their fitness. Traps can lead to rapid population declines, extirpation, and species extinction, yet they have received little attention within the context of wildlife conservation efforts. We first demonstrate that traps are affecting a taxonomically diverse range of animals including key pollinators and important human food species and commonly impact threatened and endangered species. We then provide a conceptual framework for wildlife scientists and practitioners that outlines: (1) the detectable symptoms of evolutionary traps which require further investigation if a trap is affecting the target of existing conservation management; (2) management options for eliminating traps or mitigating their demographic impacts; (3) case studies illustrating how practitioners have applied these mitigations in specific cases; and (4) a structure for considering how these management options should be integrated into existing decision‐making frameworks. Management to eliminate evolutionary traps is a new challenge for conservationist scientists requiring a deeper understanding of the sensory‐cognitive world experienced by nonhuman animals. To do so, it will be essential to diagnose the behavioral mechanisms causing traps and then identify solutions to restore adaptive behavior in target populations.

 

Abstract High-quality and complete reference genome assemblies are fundamental for the application of genomics to biology, disease, and biodiversity conservation. However, such assemblies are available for only a few non-microbial species 1–4 . To address this issue, the international Genome 10K (G10K) consortium 5,6 has worked over a five-year period to evaluate and develop cost-effective methods for assembling highly accurate and nearly complete reference genomes. Here we present lessons learned from generating assemblies for 16 species that represent six major vertebrate lineages. We confirm that long-read sequencing technologies are essential for maximizing genome quality, and that unresolved complex repeats and haplotype heterozygosity are major sources of assembly error when not handled correctly. Our assemblies correct substantial errors, add missing sequence in some of the best historical reference genomes, and reveal biological discoveries. These include the identification of many false gene duplications, increases in gene sizes, chromosome rearrangements that are specific to lineages, a repeated independent chromosome breakpoint in bat genomes, and a canonical GC-rich pattern in protein-coding genes and their regulatory regions. Adopting these lessons, we have embarked on the Vertebrate Genomes Project (VGP), an international effort to generate high-quality, complete reference genomes for all of the roughly 70,000 extant vertebrate species and to help to enable a new era of discovery across the life sciences.