Xing‐Hao Li, Ru‐Fan Li, Fang‐Jing Hu, Shuai Zheng, Fu‐Qiang Rao, Rong An, Yong‐Hong Li, De‐Guang Liu
{"title":"Comprehensive phylogenomic analyses revealed higher‐level phylogenetic relationships within the Cucujiformia","authors":"Xing‐Hao Li, Ru‐Fan Li, Fang‐Jing Hu, Shuai Zheng, Fu‐Qiang Rao, Rong An, Yong‐Hong Li, De‐Guang Liu","doi":"10.1111/jse.13079","DOIUrl":null,"url":null,"abstract":"The Cucujiformia, with remarkable morphological, ecological, and behavioral diversity, is the most evolutionarily successful group within Coleoptera. However, the phylogenetic relationships among superfamilies within Cucujiformia remain elusive. To address the issues, we conducted a transcriptome‐based macro‐evolutionary study of this lineage. We sequenced the genomes and transcriptomes of three species from the superfamily Curculionoidea (two from Curculionidae and one from Brentidae), and obtained a data set of more than 569 990 amino acid alignments from 143 species of Cucujiformia. With the most complete collection of whole genomes and transcriptomes so far, we compared the performance of different data matrices with universal‐single‐copy orthologs (USCO). The resultant trees based on different data sets were consistent for the majority of deep nodes. Two USCO amino acid matrices (i.e., USCO75 and USCO750‐abs80) provided well‐resolved topology. The analyses confirm that Cucujoidea <jats:italic>sensu</jats:italic> Robertson et al. 2015 is a nonmonophyletic group, consisting of Erotyloidea, Nitiduloidea, and Cucujoidea <jats:italic>sensu</jats:italic> Cai et al. 2022. Moreover, Erotyloidea is the early‐diverging group, followed by the clade Nitiduloidea. The preferred topologies supported a “basal” split of Coccinelloidea from the remaining superfamilies, and Cleroidea formed the second splitting group. The following phylogeny was supported at the superfamily level in Cucujiformia: (Coccinelloidea, (Cleroidea, ((Lymexyloidea, Tenebrionoidea), (Erotyloidea, (Nitiduloidea, (Cucujoidea, (Chrysomeloidea, Curculionoidea))))))). Our comprehensive analyses recovered well‐resolved higher‐level phylogenetic relationships within the Cucujiformia, providing a stable framework for comprehending its evolutionary history.","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7000,"publicationDate":"2024-05-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Systematics and Evolution","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1111/jse.13079","RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"Agricultural and Biological Sciences","Score":null,"Total":0}
引用次数: 0
Abstract
The Cucujiformia, with remarkable morphological, ecological, and behavioral diversity, is the most evolutionarily successful group within Coleoptera. However, the phylogenetic relationships among superfamilies within Cucujiformia remain elusive. To address the issues, we conducted a transcriptome‐based macro‐evolutionary study of this lineage. We sequenced the genomes and transcriptomes of three species from the superfamily Curculionoidea (two from Curculionidae and one from Brentidae), and obtained a data set of more than 569 990 amino acid alignments from 143 species of Cucujiformia. With the most complete collection of whole genomes and transcriptomes so far, we compared the performance of different data matrices with universal‐single‐copy orthologs (USCO). The resultant trees based on different data sets were consistent for the majority of deep nodes. Two USCO amino acid matrices (i.e., USCO75 and USCO750‐abs80) provided well‐resolved topology. The analyses confirm that Cucujoidea sensu Robertson et al. 2015 is a nonmonophyletic group, consisting of Erotyloidea, Nitiduloidea, and Cucujoidea sensu Cai et al. 2022. Moreover, Erotyloidea is the early‐diverging group, followed by the clade Nitiduloidea. The preferred topologies supported a “basal” split of Coccinelloidea from the remaining superfamilies, and Cleroidea formed the second splitting group. The following phylogeny was supported at the superfamily level in Cucujiformia: (Coccinelloidea, (Cleroidea, ((Lymexyloidea, Tenebrionoidea), (Erotyloidea, (Nitiduloidea, (Cucujoidea, (Chrysomeloidea, Curculionoidea))))))). Our comprehensive analyses recovered well‐resolved higher‐level phylogenetic relationships within the Cucujiformia, providing a stable framework for comprehending its evolutionary history.
期刊介绍:
Journal of Systematics and Evolution (JSE, since 2008; formerly Acta Phytotaxonomica Sinica) is a plant-based international journal newly dedicated to the description and understanding of the biological diversity. It covers: description of new taxa, monographic revision, phylogenetics, molecular evolution and genome evolution, evolutionary developmental biology, evolutionary ecology, population biology, conservation biology, biogeography, paleobiology, evolutionary theories, and related subjects.