RNA-Seq analysis of the bioluminescent and non-bioluminescent species of Elateridae (Coleoptera): Comparison to others photogenic and non-photogenic tissues of Elateroidea species

Amaral, Danilo T.; Silva, Jaqueline R.; Viviani, Vadim R.

doi:10.1016/j.cbd.2018.10.004

Cited by 5 publications

(16 citation statements)

References 71 publications

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“…Several families displayed more than 2 or 3 distinct gene families. The interesting finding is the expansion of two distinct families of luciferase, however, we did not identify the expansion of luciferase-like gene family, such as 4coumarate-CoA ligase and succinate CoA-ligase (ADP-formin superfamily), which were present in other genomes and also observed in recent transcriptome analysis luminescent and non-luminescent Elateridae species (Amaral et al, 2019b).…”

Section: Agrypininae/pyrophorini (Bioluminescent Click Beetles Ignelater Luminosus)contrasting

confidence: 77%

“…Here, we did not identify the expansion of the luciferase gene family, however, we observed the expansion of the 4-coumarate-CoA ligase, which also belongs to the adenylate-forming family. This group of gene families was also observed in the transcriptome analysis of the three bioluminescent species of Elateroidea, Elateridae, Lampyridae, and Phengodidae (Amaral et al, 2017a(Amaral et al, , 2017b(Amaral et al, , 2019b. We identified the expansions of the superoxide dismutase (SOD), cystathionine-B-synthase, and cysteine-rich protein 2-binding.…”

Section: Agrypininae/pyrophorini (Bioluminescent Click Beetles Ignelater Luminosus)mentioning

confidence: 62%

“…From them, a total of 465 gene families were annotated and classified concerning their molecular function (Table S8). The gene families are involved with catalytic activity (hydrolase and oxidoreductase activity) and binding (ion, organic cyclic compound, and heterocyclic compound binding), as well as metabolic processes (organic substance, nitrogen, and primary metabolic process), regulatory processes, and response to stimuli (Fig S5A (Amaral et al, 2017a;2017b;2019b). These genes play fundamental roles in xenobiotic detoxification and degradation of distinct molecules related to an insect diet, detoxification of metabolic compounds, resistance to pesticides, degradation of hormones (Xue et al, 2020), and the degradation of the lucibufagins (defensive steroids), present in some fireflies species and used for defensive purposes (McKinley and Lower, 2020).…”

Section: Expansion Of Ortholog Gene Familiesmentioning

confidence: 99%

“…The SOD enzyme seems to be associated with the protection of lanterns during hyperoxia and oxidative stress and is recovered in high abundance in lanterns of firefly species (Barros and Bechara, 1998;Amaral et al, 2017b). The other two gene families are associated with cysteine availability, which is a precursor of luciferin biosynthesis in Elateroidea (Viviani et al, 2013;Kanie et al, 2016;Amaral et al, 2017aAmaral et al, , 2017bAmaral et al, , 2019bZhang et al, 2020).…”

Section: Agrypininae/pyrophorini (Bioluminescent Click Beetles Ignelater Luminosus)mentioning

confidence: 99%

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Draft genome of the Brazilian railroad worm Phrixothrix hirtus E.Olivier (Phengodidae: Coleoptera)

Amaral

Mitani

Bonatelli

et al. 2021

Preprint

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The Neotropical region is the richest in bioluminescent Coleoptera species, however, its bioluminescence megadiversity is still underexplored in terms of genomic organization and evolution, mainly within the Phengodidae family. The railroad worm Phrixothrix hirtus is an important biological model and symbolic species due to its bicolor bioluminescence, being the only organism that produces true red light among bioluminescent terrestrial species. Here, we performed the partial genome assembly of P. hirtus, combining short and long reads generated with Illumina sequencing, providing an important source of genomic information and a framework for comparative genomic analyses for the evaluation of the bioluminescent system in Elateroidea. The estimated genome size has ∼3.4Gb, 32% of GC content, and 67% of repetitive elements, being the largest genome described in the Elateroidea superfamily. Several events of gene family expansions associated with anatomical development and morphogenesis, as well as distinct odorant-binding receptors and retrotransposable elements were found in this genome. Similar molecular functions and biological processes are shared with other studied species of Elateriformia. Common genes putatively associated with bioluminescence production and control, including two luciferase genes that displayed 7 exons and 6 introns, and genes that could be involved in luciferin biosynthesis were found, indicating that there are no clear differences about the presence or absence of gene families associated with bioluminescence in Elateroidea. In P. hirtus the conversion of L- to D-luciferin seems to involve additional steps using a Palmitoyl-CoA thioesterase instead of an Acyl-CoA synthetase, which was found in Lampyridae species.HighlightsFirst draft genome assembly of Phengodidae, the largest one described in Coleoptera;Gene family expansions associated with anatomical development and morphogenesis;Bioluminescent control and luciferin biosynthesis genes are common within Elateroidea;Despite similar bioluminescent system, metabolic routes may have evolved independently;

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Section: Agrypininae/pyrophorini (Bioluminescent Click Beetles Ignelater Luminosus)contrasting

confidence: 77%

Section: Agrypininae/pyrophorini (Bioluminescent Click Beetles Ignelater Luminosus)mentioning

confidence: 62%

Section: Expansion Of Ortholog Gene Familiesmentioning

confidence: 99%

Section: Agrypininae/pyrophorini (Bioluminescent Click Beetles Ignelater Luminosus)mentioning

confidence: 99%

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Draft genome of the Brazilian railroad worm Phrixothrix hirtus E.Olivier (Phengodidae: Coleoptera)

Amaral

Mitani

Bonatelli

et al. 2021

Preprint

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“…We compiled the phylogenomic dataset using Sinopyrophorus and 42 publicly available transcriptomes or genomes (Poelchau et al ., 2014; Sanders & Hall, 2015; Amaral et al ., 2017, 2019; Wang et al ., 2017; Fallon et al ., 2018; Ye et al ., 2018; Kusy et al ., 2018b, 2019; McKenna et al ., 2019) (Table S1). The single‐copy ortholog set was collated by searching the OrthoDB v.9.1 database (Zdobnov et al ., 2016) (Tables S2, S3).…”

Section: Methodsmentioning

confidence: 99%

Phylogenomic relationships of bioluminescent elateroids define the ‘lampyroid’ clade with clicking Sinopyrophoridae as its earliest member

Kusy

Bybee

et al. 2020

Systematic Entomology

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Bioluminescence has been hypothesized as aposematic signalling, intersexual communication and a predatory strategy, but origins and relationships among bioluminescent beetles have been contentious. We reconstruct the phylogeny of the bioluminescent elateroid beetles (i.e. Elateridae, Lampyridae, Phengodidae and Rhagophthalmidae), analysing genomic data of Sinopyrophorus Bi & Li, and in light of our phylogenetic results, we erect Sinopyrophoridae Bi & Li, stat.n. as a clicking elaterid‐like sister group of the soft‐bodied bioluminescent elateroid beetles, that is, Lampyridae, Phengodidae and Rhagophthalmidae. We suggest a single origin of bioluminescence for these four families, designated as the ‘lampyroid clade’, and examine the origins of bioluminescence in the terminal lineages of click beetles (Elateridae). The soft‐bodied bioluminescent lineages originated from the fully sclerotized elateroids as a derived clade with clicking Sinopyrophorus and Elateridae as their serial sister groups. This relationship indicates that the bioluminescent soft‐bodied elateroids are modified click beetles. We assume that bioluminescence was not present in the most recent common ancestor of Elateridae and the lampyroid clade and it evolved among this group with some delay, at the latest in the mid‐Cretaceous period, presumably in eastern Laurasia. The delimitation and internal structure of the elaterid‐lampyroid clade provides a phylogenetic framework for further studies on the genomic variation underlying the evolution of bioluminescence.

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Exploring Aquaporin Diversity in Elateroidea: Insights From RNA‐Seq Data Sets

Amaral

2024

Arch Insect Biochem Physiol

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Osmoregulation, the physiological regulation of water and ion balance, is vital for the survival of both aquatic and terrestrial insects. In freshwater aquatic insects, such as those within the Lampyridae family, this function is important due to the natural variation of aquatic habitats. Aquaporins play a key role in this process by facilitating the rapid transport of water molecules across cell membranes, maintaining cellular water balance, and adapting to changes in external salinity. In this study, I investigate the genetic diversity and expression levels of aquaporins in Elateroidea, particularly focusing on the Lampyridae family, using transcriptomic data and in silico analyses. The results reveal the diversity of aquaporins and compare gene expression patterns between freshwater aquatic Lampyridae and terrestrial Elateroidea species, such as Lycidae, Phengodidae, and Elateridae. Phylogenetic analyses identify seven distinct clades of aquaporins and uncovered gene duplication events related to the diversification of Elateridae and Lampyridae. A comparative abundance analysis indicated higher aquaporin expression in aquatic fireflies, aligning with the need for efficient osmoregulation in aquatic environments. Additionally, stage‐specific expression patterns in Aspisoma lineatum (Neotropical firefly) and Aquatica lateralis (Paleartic firefly) suggest species‐specific strategies for coping with osmotic challenges during development. This study provides insights into the evolutionary adaptations of aquaporins in Elateroidea, highlighting their importance in both aquatic and terrestrial insect physiology.

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RNA-Seq analysis of the bioluminescent and non-bioluminescent species of Elateridae (Coleoptera): Comparison to others photogenic and non-photogenic tissues of Elateroidea species

Cited by 5 publications

References 71 publications

Draft genome of the Brazilian railroad worm Phrixothrix hirtus E.Olivier (Phengodidae: Coleoptera)

Draft genome of the Brazilian railroad worm Phrixothrix hirtus E.Olivier (Phengodidae: Coleoptera)

Phylogenomic relationships of bioluminescent elateroids define the ‘lampyroid’ clade with clicking Sinopyrophoridae as its earliest member

Exploring Aquaporin Diversity in Elateroidea: Insights From RNA‐Seq Data Sets

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