title: Deep, Staged Transcriptomic Resources for the Novel Coleopteran Models Atrachya menetriesi and Callosobruchus maculatus.
abstract: Despite recent efforts to sample broadly across metazoan and insect diversity, current sequence resources in the Coleoptera do not adequately describe the diversity of the clade. Here we present deep, staged transcriptomic data for two coleopteran species, Atrachya menetriesi (Faldermann 1835) and Callosobruchus maculatus (Fabricius 1775). Our sampling covered key stages in ovary and early embryonic development in each species. We utilized this data to build combined assemblies for each species which were then analysed in detail. The combined A. menetriesi assembly consists of 228,096 contigs with an N50 of 1,598 bp, while the combined C. maculatus assembly consists of 128,837 contigs with an N50 of 2,263 bp. For these assemblies, 34.6% and 32.4% of contigs were identified using Blast2GO, and 97% and 98.3% of the BUSCO set of metazoan orthologs were present, respectively. We also carried out manual annotation of developmental signalling pathways and found that nearly all expected genes were present in each transcriptome. Our analyses show that both transcriptomes are of high quality. Lastly, we performed read mapping utilising our timed, stage specific RNA samples to identify differentially expressed contigs. The resources presented here will provide a firm basis for a variety of experimentation, both in developmental biology and in comparative genomic studies.
authors.affiliation: Institute for Developmental Biology, University of Cologne, Cologne, Germany.
authors.forename: Matthew A
authors.identifier: http://orcid.org/0000-0001-7953-0765
authors.initials: MA
authors.lastname: Benton
authors.affiliation: Simon F.S. Li School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong.
authors.forename: Nathan J
authors.initials: NJ
authors.lastname: Kenny
authors.affiliation: Institute for Developmental Biology, University of Cologne, Cologne, Germany.
authors.forename: Kai H
authors.initials: KH
authors.lastname: Conrads
authors.affiliation: Institute for Developmental Biology, University of Cologne, Cologne, Germany.
authors.forename: Siegfried
authors.initials: S
authors.lastname: Roth
authors.affiliation: Department of Biological Sciences, University of Illinois at Chicago, Chicago, Illinois, United States of America.
authors.forename: Jeremy A
authors.initials: JA
authors.lastname: Lynch
mesh_terms: D000818:Animals; D001517:Coleoptera / Q000145:classification / Q000235:genetics*; D020869:Gene Expression Profiling; D023281:Genomics; D059014:High-Throughput Nucleotide Sequencing; D058977:Molecular Sequence Annotation; D015398:Signal Transduction; D059467:Transcriptome / Q000235:genetics*