Hayden R Davis, Henry T Sanford, Indraneil Das, Izneil Nashriq, Adam D Leaché
{"title":"确定婆罗洲壁虎的物种界限。","authors":"Hayden R Davis, Henry T Sanford, Indraneil Das, Izneil Nashriq, Adam D Leaché","doi":"10.1098/rsbl.2024.0157","DOIUrl":null,"url":null,"abstract":"<p><p>Species delimitation using mitochondrial DNA (mtDNA) remains an important and accessible approach for discovering and delimiting species. However, delimiting species with a single locus (e.g. DNA barcoding) is biased towards overestimating species diversity. The highly diverse gecko genus <i>Cyrtodactylus</i> is one such group where delimitation using mtDNA remains the paradigm. In this study, we use genomic data to test putative species boundaries established using mtDNA within three recognized species of <i>Cyrtodactylus</i> on the island of Borneo. We predict that multi-locus genomic data will estimate fewer species than mtDNA, which could have important ramifications for the species diversity within the genus. We aim to (i) investigate the correspondence between species delimitations using mtDNA and genomic data, (ii) infer species trees for each target species, and (iii) quantify gene flow and identify migration patterns to assess population connectivity. We find that species diversity is overestimated and that species boundaries differ between mtDNA and nuclear data. This underscores the value of using genomic data to reassess mtDNA-based species delimitations for taxa lacking clear species boundaries. We expect the number of recognized species within <i>Cyrtodactylus</i> to continue increasing, but, when possible, genomic data should be included to inform more accurate species boundaries.</p>","PeriodicalId":9005,"journal":{"name":"Biology Letters","volume":"20 8","pages":"20240157"},"PeriodicalIF":2.8000,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11322891/pdf/","citationCount":"0","resultStr":"{\"title\":\"Establishing species boundaries in Bornean geckos.\",\"authors\":\"Hayden R Davis, Henry T Sanford, Indraneil Das, Izneil Nashriq, Adam D Leaché\",\"doi\":\"10.1098/rsbl.2024.0157\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>Species delimitation using mitochondrial DNA (mtDNA) remains an important and accessible approach for discovering and delimiting species. However, delimiting species with a single locus (e.g. DNA barcoding) is biased towards overestimating species diversity. The highly diverse gecko genus <i>Cyrtodactylus</i> is one such group where delimitation using mtDNA remains the paradigm. In this study, we use genomic data to test putative species boundaries established using mtDNA within three recognized species of <i>Cyrtodactylus</i> on the island of Borneo. We predict that multi-locus genomic data will estimate fewer species than mtDNA, which could have important ramifications for the species diversity within the genus. We aim to (i) investigate the correspondence between species delimitations using mtDNA and genomic data, (ii) infer species trees for each target species, and (iii) quantify gene flow and identify migration patterns to assess population connectivity. We find that species diversity is overestimated and that species boundaries differ between mtDNA and nuclear data. This underscores the value of using genomic data to reassess mtDNA-based species delimitations for taxa lacking clear species boundaries. We expect the number of recognized species within <i>Cyrtodactylus</i> to continue increasing, but, when possible, genomic data should be included to inform more accurate species boundaries.</p>\",\"PeriodicalId\":9005,\"journal\":{\"name\":\"Biology Letters\",\"volume\":\"20 8\",\"pages\":\"20240157\"},\"PeriodicalIF\":2.8000,\"publicationDate\":\"2024-08-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11322891/pdf/\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Biology Letters\",\"FirstCategoryId\":\"99\",\"ListUrlMain\":\"https://doi.org/10.1098/rsbl.2024.0157\",\"RegionNum\":2,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"2024/8/14 0:00:00\",\"PubModel\":\"Epub\",\"JCR\":\"Q2\",\"JCRName\":\"BIOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Biology Letters","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1098/rsbl.2024.0157","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2024/8/14 0:00:00","PubModel":"Epub","JCR":"Q2","JCRName":"BIOLOGY","Score":null,"Total":0}
Establishing species boundaries in Bornean geckos.
Species delimitation using mitochondrial DNA (mtDNA) remains an important and accessible approach for discovering and delimiting species. However, delimiting species with a single locus (e.g. DNA barcoding) is biased towards overestimating species diversity. The highly diverse gecko genus Cyrtodactylus is one such group where delimitation using mtDNA remains the paradigm. In this study, we use genomic data to test putative species boundaries established using mtDNA within three recognized species of Cyrtodactylus on the island of Borneo. We predict that multi-locus genomic data will estimate fewer species than mtDNA, which could have important ramifications for the species diversity within the genus. We aim to (i) investigate the correspondence between species delimitations using mtDNA and genomic data, (ii) infer species trees for each target species, and (iii) quantify gene flow and identify migration patterns to assess population connectivity. We find that species diversity is overestimated and that species boundaries differ between mtDNA and nuclear data. This underscores the value of using genomic data to reassess mtDNA-based species delimitations for taxa lacking clear species boundaries. We expect the number of recognized species within Cyrtodactylus to continue increasing, but, when possible, genomic data should be included to inform more accurate species boundaries.
期刊介绍:
Previously a supplement to Proceedings B, and launched as an independent journal in 2005, Biology Letters is a primarily online, peer-reviewed journal that publishes short, high-quality articles, reviews and opinion pieces from across the biological sciences. The scope of Biology Letters is vast - publishing high-quality research in any area of the biological sciences. However, we have particular strengths in the biology, evolution and ecology of whole organisms. We also publish in other areas of biology, such as molecular ecology and evolution, environmental science, and phylogenetics.