Draft Genome Assemblies and Annotations of Agrypnia vestita Walker, and Hesperophylax magnus Banks Reveal Substantial Repetitive Element Expansion in Tube Case-Making Caddisflies (Insecta: Trichoptera)

Lindsey K. Olsen, Jacqueline Heckenhauer, John S. Sproul, Rebecca B. Dikow, Vanessa L. Gonzalez, Matthew P. Kweskin, Adam M. Taylor, Seth B. Wilson, Russell J. Stewart, Xin Zhou, Ralph Holzenthal, Steffen U. Pauls, Paul B. Frandsen

Research output: Contribution to journalArticlepeer-review

2 Scopus citations

Abstract

Trichoptera (caddisflies) play an essential role in freshwater ecosystems; for instance, larvae process organic material from the water andarefoodforavarietyofpredators.Knowledgeonthegenomicdiversityofcaddisfliescanfacilitatecomparativeandphylogenetic studies thereby allowing scientists to better understand the evolutionary history of caddisflies. Although Trichoptera are the most diverse aquatic insect order, they remain poorly represented in terms of genomic resources. To date, all long-read based genomes have been sequenced from individuals in the retreat-making suborder, Annulipalpia, leaving ~275 Ma of evolution without highquality genomic resources. Here, we report the first long-read based de novo genome assemblies of two tube case-making Trichoptera from the suborder Integripalpia, Agrypnia vestita Walker and Hesperophylax magnus Banks. We find that these tube case-making caddisflies have genome sizes that are at least 3-fold larger than those of currently sequenced annulipalpian genomes and that this pattern is at least partly driven by major expansion of repetitive elements. In H. magnus, long interspersed nuclear elements alone exceed the entire genome size of some annulipalpian counterparts suggesting that caddisflies have high potential as a model for understanding genome size evolution in diverse insect lineages. The Author(s) 2021.

Original languageEnglish (US)
Article numberevab013
JournalGenome biology and evolution
Volume13
Issue number3
DOIs
StatePublished - Mar 1 2021

Bibliographical note

Funding Information:
This material is based upon work supported by the Global Genome Initiative under Grant No. GGI-Exploratory-2016-049. J.H. was supported by LOEWE-Centre for Translational Biodiversity Genomics funded by the Hessen State Ministry of Higher Education, Research and the Arts (HMWK). J.S.S. was supported by an NSF Postdoctoral Research Fellowship in Biology (DBI-1811930). Part of the computation was performed on the Smithsonian High-Performance Computing Cluster (SI/HPC: doi.org/10.25572/SIHPC). L.K.O. was supported by a BYU College of Life Sciences Undergraduate Research Award.

Funding Information:
This material is based upon work supported by the Global Genome Initiative under Grant No. GGI-Exploratory-2016-049. J.H. was supported by LOEWE-Centre for Translational Biodiversity Genomics funded by the Hessen State Ministry of Higher Education, Research and the Arts (HMWK). J.S.S. was supported by an NSF Postdoctoral Research Fellowship in Biology (DBI-1811930). Part of the computation was performed on the Smithsonian High-Performance Computing Cluster (SI/HPC: doi.org/10.25572/SIHPC). L.K.O. was supported by a BYU College of Life Sciences Undergraduate Research Award.

Publisher Copyright:
© 2021 Oxford University Press. All rights reserved.

Keywords

  • Biodiversity genomics
  • Trichoptera
  • caddisfly
  • freshwater insects
  • insect genomics
  • repetitive elements

PubMed: MeSH publication types

  • Journal Article
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

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