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Shared Features Underlying Compact Genomes and Extreme Habitat Use in Chironomid Midges.
Nell, Lucas A; Weng, Yi-Ming; Phillips, Joseph S; Botsch, Jamieson C; Book, K Riley; Einarsson, Árni; Ives, Anthony R; Schoville, Sean D.
Afiliación
  • Nell LA; Department of Integrative Biology, University of Wisconsin, Madison, WI 53706, USA.
  • Weng YM; Department of Biology, Stanford University, Stanford, CA 94305, USA.
  • Phillips JS; Department of Entomology, University of Wisconsin, Madison, WI 53706, USA.
  • Botsch JC; McGuire Center for Lepidoptera & Biodiversity, Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA.
  • Book KR; Department of Integrative Biology, University of Wisconsin, Madison, WI 53706, USA.
  • Einarsson Á; Department of Biology, Creighton University, Omaha, NE 68178, USA.
  • Ives AR; Department of Integrative Biology, University of Wisconsin, Madison, WI 53706, USA.
  • Schoville SD; North Central Agricultural Research Laboratory, USDA-ARS, Brookings, SD 57006, USA.
Genome Biol Evol ; 16(5)2024 05 02.
Article en En | MEDLINE | ID: mdl-38662498
ABSTRACT
Nonbiting midges (family Chironomidae) are found throughout the world in a diverse array of aquatic and terrestrial habitats, can often tolerate harsh conditions such as hypoxia or desiccation, and have consistently compact genomes. Yet we know little about the shared molecular basis for these attributes and how they have evolved across the family. Here, we address these questions by first creating high-quality, annotated reference assemblies for Tanytarsus gracilentus (subfamily Chironominae, tribe Tanytarsini) and Parochlus steinenii (subfamily Podonominae). Using these and other publicly available assemblies, we created a time-calibrated phylogenomic tree for family Chironomidae with outgroups from order Diptera. We used this phylogeny to test for features associated with compact genomes, as well as examining patterns of gene family evolution and positive selection that may underlie chironomid habitat tolerances. Our results suggest that compact genomes evolved in the common ancestor of Chironomidae and Ceratopogonidae and that this occurred mainly through reductions in noncoding regions (introns, intergenic sequences, and repeat elements). Significantly expanded gene families in Chironomidae included biological processes that may relate to tolerance of stressful environments, such as temperature homeostasis, carbohydrate transport, melanization defense response, and trehalose transport. We identified several positively selected genes in Chironomidae, notably sulfonylurea receptor, CREB-binding protein, and protein kinase D. Our results improve our understanding of the evolution of small genomes and extreme habitat use in this widely distributed group.
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Texto completo: 1 Banco de datos: MEDLINE Asunto principal: Filogenia / Chironomidae / Ecosistema / Genoma de los Insectos Límite: Animals Idioma: En Revista: Genome Biol Evol Asunto de la revista: BIOLOGIA / BIOLOGIA MOLECULAR Año: 2024 Tipo del documento: Article País de afiliación: Estados Unidos

Texto completo: 1 Banco de datos: MEDLINE Asunto principal: Filogenia / Chironomidae / Ecosistema / Genoma de los Insectos Límite: Animals Idioma: En Revista: Genome Biol Evol Asunto de la revista: BIOLOGIA / BIOLOGIA MOLECULAR Año: 2024 Tipo del documento: Article País de afiliación: Estados Unidos