Transcriptome Surveys in Silverfish Suggest a Multistep Origin of the Insect Odorant Receptor Gene Family

Thoma, Michael; Missbach, Christine; Jordan, Melissa D.; Große-Wilde, Ewald; Newcomb, Richard D.; Hansson, Bill S.

doi:10.1101/604389

Cited by 4 publications

(4 citation statements)

References 95 publications

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“…GRs, which detect nonvolatile compounds, probably represent the oldest chemosensory receptors (Eyun et al, 2017), being distributed in several taste organs along the entire body including mouth pieces, legs, wing margins and other specialized structures such as vaginal plate sensilla in abdomens of female flies (Stocker, 1994). Airborne chemical particles are perceived in the head appendages by the ORs, an insect-specific chemoreception gene family thought to have originated from the GR gene family (Robertson, 2019;Robertson et al, 2003;Thoma et al, 2019).…”

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confidence: 99%

Smelling in the dark: Phylogenomic insights into the chemosensory system of a subterranean beetle

et al. 2021

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confidence: 99%

Smelling in the dark: Phylogenomic insights into the chemosensory system of a subterranean beetle

et al. 2021

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“…For phylogenetic reconstruction of termite ORs, we used 182 OR protein sequences originating from five termite species, i.e. Neotermes cubanus, Prorhinotermes simplex, Inquilinitermes inquilinus (Johny et al, 2023), Zootermopsis nevadensis (Terrapon et al, 2014) and Cryptotermes secundus (Harrison et al, 2018), and the bristletail Lepisma saccharina (Thoma et al, 2019) as a basal insect outgroup. For all species also the ORCo sequence was included.…”

Section: Bioinformaticsmentioning

confidence: 99%

Identification of the trail-following pheromone receptor in termites

Diallo,

Kašparová,

Šulc

et al. 2024

Preprint

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Chemical communication is the cornerstone of eusocial insect societies since it mediates the social hierarchy, division of labor, and concerted activities of colony members. The chemistry of social insect pheromones received considerable attention in both major groups of social insects, the eusocial Hymenoptera and termites. By contrast, current knowledge on molecular mechanisms of social insect pheromone detection by odorant receptors (ORs) is limited to hymenopteran social insects and no OR was yet functionally characterized in termites, the oldest eusocial insect clade. Here, we present the first OR deorphanization in termites. Using the data from antennal transcriptome and genome of the termite Prorhinotermes simplex (Rhinotermitidae), we selected 4 candidate OR sequences, expressed them in Empty Neuron Drosophila, and functionally characterized using single sensillum recording (SSR) and a panel of termite semiochemicals. In one of the selected ORs, PsimOR14, we succeeded in obtaining strong and reliable responses to the main component of P. simplex trail-following pheromone, the monocyclic diterpene neocembrene. PsimOR14 showed a narrow tuning to neocembrene; only one additional compound out of 72 tested (geranylgeraniol) generated non-negligible responses. Subsequently, we used SSR and P. simplex workers to identify the olfactory sensillum specifically responding to neocembrene, thus likely expressing PsimOR14. We report on homology-based modelling of neocembrene binding by PsimOR14 and show how different ligands impact the receptor dynamicity using molecular dynamics simulations. Finally, we demonstrate that PsimOR14 is significantly more expressed in workers than in soldiers, which correlates with higher sensitivity of workers to neocembrene.

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“…The combination and joint analysis of data from several species allows the interrogation of the dynamics of gene family evolution at macroevolutionary scales. This approach has been followed to investigate evolutionary dynamics in complex gene families in clades such as land plants (Geng et al 2021), insects (Thoma et al 2019) or molluscs (De Oliveira et al 2016), and has also been leveraged to investigate macroevolutionary patterns of gene gain and loss across animal phyla (De Oliveira et al 2016;Fernández and Gabaldón 2020).…”

Section: Leveraging Transcriptomes To Interrogate Gene Repertoire Evo...mentioning

confidence: 99%

MATEdb, a data repository of high-quality metazoan transcriptome assemblies to accelerate phylogenomic studies

Fernández

Tonzo

Guerrero

et al. 2022

Preprint

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With the advent of high throughput sequencing, the amount of genomic data available for animals (Metazoa) species has bloomed over the last decade, especially from transcriptomes due to lower sequencing costs and easier assembling process compared to genomes. Transcriptomic data sets have proven useful for phylogenomic studies, such as inference of phylogenetic interrelationships (eg, species tree reconstruction) and comparative genomics analyses (e.g., gene repertoire evolutionary dynamics). However, these data sets are often analyzed following different analytical pipelines, particularly including different software versions, leading to potential methodological biases when analyzed jointly in a comparative framework. Moreover, these analyses are computationally expensive and not affordable for a large part of the scientific community. More importantly, assembled transcriptomes are usually not deposited in public databases. Furthermore, the quality of these data sets is hardly ever taken into consideration, potentially impacting subsequent analyses such as orthology and phylogenetic or gene repertoire evolution inference. To alleviate these issues, we present Metazoan Assemblies from Transcriptomic Ensembles (MATEdb), a curated database of 335 high-quality transcriptome assemblies from different animal phyla analyzed following the same pipeline. The repository is composed, for each species, of (1) a de novo transcriptome assembly, (2) its candidate coding regions within transcripts (both at the level of nucleotide and amino acid sequences), (3) the coding regions filtered using their contamination profile (i.e., only metazoan content), (4) the longest isoform of the amino acid candidate coding regions, (5) the gene content completeness score as assessed against the BUSCO database, and (6) an orthology-based gene annotation. We complement the repository with gene annotations from high-quality genomes, which are often not straightforward to obtain from individual sequencing projects, totalling 423 high-quality genomic and transcriptomic data sets. We invite the community to provide suggestions for new data sets and new annotation features to be included in subsequent versions, that will be analyzed following the same pipeline and be permanently stored in public repositories. We believe that MATEdb will accelerate research on animal phylogenomics while saving thousands of hours of computational work in a plea for open and collaborative science.

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Transcriptome Surveys in Silverfish Suggest a Multistep Origin of the Insect Odorant Receptor Gene Family

Abstract: The insect odorant receptor (Or) gene family is among the largest multigene families in insect genomes, but its evolutionary origin and mode of expansion is still a matter of debate. We performed transcriptomic surveys of two wingless insect species, the silverfish Lepisma saccharina and

Cited by 4 publications

References 95 publications

Smelling in the dark: Phylogenomic insights into the chemosensory system of a subterranean beetle

Smelling in the dark: Phylogenomic insights into the chemosensory system of a subterranean beetle

Identification of the trail-following pheromone receptor in termites

MATEdb, a data repository of high-quality metazoan transcriptome assemblies to accelerate phylogenomic studies

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