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From these new genome assemblies, we extracted thousands of loci commonly used in systematic and phylogenomic studies on snakes, including target-capture datasets composed of ultraconserved elements (UCEs) and anchored hybrid enriched loci (AHEs), as well as traditional Sanger loci. Phylogenies inferred from the two target-capture loci datasets were identical with each other and strongly congruent with previously published snake phylogenies. To show the additional utility of these non-model genomes for investigative evolutionary research, we mined the genome assemblies of two New Guinea island endemics in our dataset (S. admiraltiensis and T. doriae) for the ATP1a3 gene, a thoroughly researched indicator of resistance to toad toxin ingestion by squamates. We find that both these snakes possess the genotype for toad toxin resistance despite their endemism to New Guinea, a region absent of any toads until the human-mediated introduction of Cane Toads in the 1930s. These species possess identical substitutions that suggest the same bufotoxin resistance as their Australian congenerics (Stegonotus australis and Tropidonophis mairii) which forage on invasive Cane Toads. Herein, we show the utility of short-read high-coverage genomes, as well as improving the deficit of available squamate genomes with associated voucher specimens.<\/jats:p>","DOI":"10.1093\/jhered\/esae026","type":"journal-article","created":{"date-parts":[[2024,5,9]],"date-time":"2024-05-09T12:30:07Z","timestamp":1715257807000},"page":"487-497","source":"Crossref","is-referenced-by-count":7,"title":["Whole snake genomes from eighteen families of snakes (Serpentes: Caenophidia) and their applications to systematics"],"prefix":"10.1093","volume":"115","author":[{"ORCID":"https:\/\/orcid.org\/0009-0002-7397-7296","authenticated-orcid":false,"given":"Jackson R","family":"Roberts","sequence":"first","affiliation":[{"name":"Division of Zoology,\u00a0Sternberg Museum of Natural History, Fort Hays State University , Hays, KS 67601 ,","place":["United States"]},{"name":"Division of Herpetology, Museum of Natural Science, Louisiana State University , Baton Rouge, LA 70803,","place":["United States"]},{"name":"Department of Biological Sciences, Louisiana State University , Baton Rouge, LA 70803 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5249-3340","authenticated-orcid":false,"given":"Justin M","family":"Bernstein","sequence":"additional","affiliation":[{"name":"Center for Genomics, University of Kansas , Lawrence, KS 66045 ,","place":["United States"]},{"name":"Department of Biology, University of Texas at Arlington , Arlington, TX 76010 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8195-5981","authenticated-orcid":false,"given":"Christopher C","family":"Austin","sequence":"additional","affiliation":[{"name":"Division of Herpetology, Museum of Natural Science, Louisiana State University , Baton Rouge, LA 70803,","place":["United States"]},{"name":"Department of Biological Sciences, Louisiana State University , Baton Rouge, LA 70803 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Taylor","family":"Hains","sequence":"additional","affiliation":[{"name":"Committee on Evolutionary Biology, University of Chicago , Chicago, IL 60637 ,","place":["United States"]},{"name":"Life Sciences Section, Negaunee Integrative Research Center, The Field Museum of Natural History , Chicago, IL 60637 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2935-6185","authenticated-orcid":false,"given":"Joshua","family":"Mata","sequence":"additional","affiliation":[{"name":"Amphibian and Reptile Collection, The Field Museum of Natural History , Chicago, IL 60605 ,","place":["United 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