Geographic expansion and dominance of the invading species Drosophila nasuta (Diptera, Drosophilidae) in Brazil

Silva, Danúbia Guimarães; Schmitz, Hermes José; Medeiros, Hermes Fônseca de; Rohde, Cláudia; Montes, Martín Alejandro; Garcia, Ana Cristina Lauer

doi:10.1007/s10841-020-00219-1

Cited by 9 publications

(4 citation statements)

References 56 publications

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“…This species group radiated in the last 2 My ( Kitagawa et al 1982 ; Bachtrog 2006 ; Ranjini and Ramachandra 2013 ; Mai et al 2020 ) and is widely distributed across Asia, with some populations found in eastern Africa, Oceania, and Hawaii ( Wilson et al 1969 ; Mai et al 2020 ). Drosophila nasuta has recently been identified as an invasive species in Brazil that is spreading quickly in South America ( Vilela and Goñib 2015 ; Silva et al 2020 ). Whereas most of the species are geographically isolated, they have varying levels of reproductive isolation ( Kitagawa et al 1982 ); over half of interspecific crosses produce viable offspring.…”

Section: Introductionmentioning

confidence: 99%

Dynamics and Impacts of Transposable Element Proliferation in the Drosophila nasuta Species Group Radiation

Wei

Mai

Chatla

et al. 2022

Molecular Biology and Evolution

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Transposable element (TE) mobilization is a constant threat to genome integrity. Eukaryotic organisms have evolved robust defensive mechanisms to suppress their activity, yet TEs can escape suppression and proliferate, creating strong selective pressure for host defense to adapt. This genomic conflict fuels a never-ending arms race that drives the rapid evolution of TEs and recurrent positive selection of genes involved in host defense; the latter has been shown to contribute to postzygotic hybrid incompatibility. However, how TE proliferation impacts genome and regulatory divergence remains poorly understood. Here, we report the highly complete and contiguous (N50=33.8Mb - 38.0Mb) genome assemblies of seven closely-related Drosophila species that belong to the nasuta species group - a poorly studied group of flies that radiated in the last 2 million years. We constructed a high quality de novo TE library and gathered germline RNA-seq data, which allowed us to comprehensively annotate and compare TE insertion patterns between the species, and infer the evolutionary forces controlling their spread. We find a strong negative association between TE insertion frequency and expression of genes nearby; this likely reflects survivor-bias from reduced fitness impact of TEs inserting near lowly expressed, non-essential genes, with limited TE-induced epigenetic silencing. Phylogenetic analyses of insertions of 147 TE families reveal that 53% of them show recent amplification in at least one species. The most highly amplified TE is a non-autonomous DNA element DINE which has gone through multiple bouts of expansions with thousands of full length copies littered throughout each genome. Across all TEs, we find that TEs expansions are significantly associated with high expression in the expanded species consistent with suppression escape. Thus, while horizontal transfer followed by invasion of a naïve genome has been highlighted to explain the long-term survival of TEs, our analysis suggests that evasion of host suppression of resident TEs is a major strategy to persist over evolutionary times. Altogether, our results shed light on the heterogenous and context-dependent nature in which TEs affect gene regulation and the dynamics of rampant TE proliferation amidst a recently radiated species group.

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Section: Introductionmentioning

confidence: 99%

Dynamics and Impacts of Transposable Element Proliferation in the Drosophila nasuta Species Group Radiation

Wei

Mai

Chatla

et al. 2022

Molecular Biology and Evolution

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“…Therefore, to illuminate how TEs proliferate and potentially drive genome evolution and speciation, we used long--read technologies to generate high quality genome assemblies of seven closely related Drosophila species (Figure 1A,B) that belong to the nasuta group. These species group radiated in the last two million years (Kitagawa et al 1982;Bachtrog 2006;Ranjini and Ramachandra 2013;Mai et al 2020) and is widely distributed across Asia, with some populations found in eastern Africa, Oceania, and Hawaii (Wilson et al 1969;Mai et al 2020), and D. nasuta has recently been identified as an invasive species in Brazil that is spreading quickly in South America (Vilela and Goñib 2015;Silva et al 2020). While most of the species are geographically isolated, they have varying levels of reproductive isolation (Kitagawa et al 1982); over half of interspecific crosses produce viable offspring.…”

Section: Introductionmentioning

confidence: 99%

Dynamics and impacts of transposable element proliferation during the Drosophila nasuta species group radiation

Wei

Mai

Chatla

et al. 2021

Preprint

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Transposable element (TE) mobilization is a constant threat to genome integrity. Eukaryotic organisms have evolved robust defensive mechanisms to suppress their activity, yet TEs can escape suppression and proliferate, creating strong selective pressure for host defense to adapt. This genomic conflict fuels a never-ending arms race that drives the rapid evolution of TEs and recurrent positive selection of genes involved in host defense; the latter has been shown to contribute to postzygotic hybrid incompatibility. However, how TE proliferation impacts genome and regulatory divergence remains poorly understood. Here, we report the highly complete and contiguous (N50=33.8Mb - 38.0Mb) genome assemblies of seven closely-related Drosophila species that belong to the nasuta species group - a poorly studied group of flies that radiated in the last 2 million years. We constructed a high quality de novo TE library and gathered germline RNA-seq data, which allowed us to comprehensively annotate and compare insertion patterns between the species, and infer the evolutionary forces controlling their spread. We find a strong negative association between TE insertion frequency and expression of genes nearby; this likely reflects survivor-bias from reduced fitness impact of TE inserting near lowly expressed, non-essential genes, with limited TE-induced epigenetic silencing. Phylogenetic analyses of insertions of 147 TE families reveal that 53% of them show recent amplification in at least one species. The most highly amplified TE is an non-autonomous DNA element DINE which has gone through multiple bouts of expansions with thousands of full length copies littered throughout each genome. Across all TEs, we find that TEs expansions are significantly associated with high expression in the expanded species consistent with suppression escape. Altogether, our results shed light on the heterogenous and context-dependent nature in which TEs affect gene regulation and the dynamics of rampant TE proliferation amidst a recently radiated species group.

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“…The species D. nasuta and D. sturtevanti , classified as from both sites, have different biological and ecological aspects. D. nasuta is an exotic species, recently introduced in Brazil (first record in 2013, Leão et al 2017; Silva et al 2020), and first recorded in the Amazon in 2017 (from de de Medeiros et al 2022). Its invasive potential causes concern to native species, as this species has a high reproductive capacity and can use a great diversity of habitats and resources (Silva et al 2020; Montes et al 2021).…”

Section: Discussionmentioning

confidence: 99%

“…D. nasuta is an exotic species, recently introduced in Brazil (first record in 2013, Leão et al 2017; Silva et al 2020), and first recorded in the Amazon in 2017 (from de de Medeiros et al 2022). Its invasive potential causes concern to native species, as this species has a high reproductive capacity and can use a great diversity of habitats and resources (Silva et al 2020; Montes et al 2021). D. sturtevanti is a native neotropical species (da Conceicao Galego & Carareto 2005) and the structural characteristics of the environment do not seem to be a limiting factor for this species (Martins 1987).…”

Section: Discussionmentioning

confidence: 99%

Diversity and community structure of Drosophila (Hexapoda, Diptera) in post‐mining sites under different forest restoration techniques in the Brazilian Amazon

de Oliveira Brito,

Barbosa Viana‐Junior,

de Lurdes Bezerra Praxedes

et al. 2023

Restoration Ecology

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To mitigate the impacts of deforestation, Brazilian legislation requires the implementation of a Degraded Area Recovery Plan (PRAD). One way to assess the recovery of these areas is using bioindicators. This research tested the use of the drosophilid community structure as an indicator to evaluate post‐mining area restoration. We compared two regeneration techniques within the same chronological sequence and as reference used the forest remnants within the exploration area. The study was conducted in the municipality of Paragominas—Pará, in areas managed by Hydro mining company. Five sites of forest remnants were selected, five in natural regeneration and five in the nucleation technique, the latter two making up the PRADs. A total of 5,919 male drosophilids were collected belonging to 10 genera, and 32 species. Rarefaction showed the curves of the PRADs to be more asymptotic, than forested areas. Forest areas are potentially richer and, on average, have lower abundances and lower diversity. Beta diversity components in the forest present greater turnover and less nestedness processes when compared to PRADs areas. The PRADs showed no differences between them for any of the analyzed patterns. D. nasuta and D. sturtevanti behaved as generalists in relation to habitats, D. paulistorum and D. willistoni as forest specialists. D. malerkotliana, D. simulans, Scaptodrosophila latifasciaeformis, and Zaprionus indianus behaved as specialists in PRADs areas. The structure of the drosophilid community varied according to the environment, proving to be a good indicator for forest and regenerating environments, but it did not detect differences between the PRADs environments in early regeneration (6 years).

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Geographic expansion and dominance of the invading species Drosophila nasuta (Diptera, Drosophilidae) in Brazil

Cited by 9 publications

References 56 publications

Dynamics and Impacts of Transposable Element Proliferation in the Drosophila nasuta Species Group Radiation

Dynamics and Impacts of Transposable Element Proliferation in the Drosophila nasuta Species Group Radiation

Dynamics and impacts of transposable element proliferation during the Drosophila nasuta species group radiation

Diversity and community structure of Drosophila (Hexapoda, Diptera) in post‐mining sites under different forest restoration techniques in the Brazilian Amazon

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