2020
DOI: 10.1101/2020.04.27.065235
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The complete mitochondrial genome sequence ofOryctes rhinoceros(Coleoptera: Scarabaeidae) based on long-read nanopore sequencing

Abstract: The coconut rhinoceros beetle (CRB, Oryctes rhinoceros) is a severe and invasive pest of coconut and other palms throughout Asia and the Pacific. The biocontrol agent, Oryctes rhinoceros nudivirus (OrNV), has successfully suppressed O. rhinoceros populations for decades but new CRB invasions started appearing after 2007. A single-SNP variant within the mitochondrial cox1 gene is used to distinguish the recently-invading CRB-G lineage from other haplotypes, but the lack of mitogenome sequence for this species h… Show more

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Cited by 3 publications
(6 citation statements)
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“…There is no obvious mitogenome expansion or contraction within available spider mitogenomes during the diversification process. Although mitogenome rearrangements are very common in spider lineages [26] and also in other arthropods, such as crabs [27] and beetles [28], the unique tRNA gene rearrangements were detected in the mitogenomes of the two aquatic spider species, Argyroneta aquatica (family: Dictynidae) and Desis jiaxiangi (family: Desidae). Compared to spider lineages in the clade Entelegynae, the translocation of trnL2 and trnN was identified in Desis jiaxiangi, and trnN changed the linked strand in Argyroneta aquatica.…”
Section: Discussionmentioning
confidence: 99%
“…There is no obvious mitogenome expansion or contraction within available spider mitogenomes during the diversification process. Although mitogenome rearrangements are very common in spider lineages [26] and also in other arthropods, such as crabs [27] and beetles [28], the unique tRNA gene rearrangements were detected in the mitogenomes of the two aquatic spider species, Argyroneta aquatica (family: Dictynidae) and Desis jiaxiangi (family: Desidae). Compared to spider lineages in the clade Entelegynae, the translocation of trnL2 and trnN was identified in Desis jiaxiangi, and trnN changed the linked strand in Argyroneta aquatica.…”
Section: Discussionmentioning
confidence: 99%
“…The exaggerated ornaments of the Dynastinae males (especially Dynastini) are well discussed for sexual selection (Ito et al 2013), and many enthusiasts are also obsessed with their morphological diversity. However, the high-level relationships of Dynastinae remain largely unknown, and even a few studies have pointed out polyphyletic relationships in the tribe-level (Hunt et al 2007;Gunter et al 2016;Paucar-Cabrera and Moore 2018;S ıpek et al 2016;Song and Zhang 2018;Eberle et al 2019;Filipovi c et al 2021). More robust phylogenetic relationships of Dynastinae are needed, however, only one complete and one partial mitogenomes of the Dynastinae were published in GenBank (accessed on 15 March 2021).…”
mentioning
confidence: 99%
“…Another circular node (edge_371) (Figure 2C) with a high depth of coverage (1,196X) was 126,204 bp in length, which we identified through the NCBI ‘blastn’ search as the Oryctes rhinoceros nudivirus (OrNV), a double-stranded DNA virus used as a biocontrol agent against O. rhinoceros [29]. Both nodes were removed from the draft assembly graph and analysed separately (Figure 2E-F), and their detailed characterization is described elsewhere [25], [26].…”
Section: Resultsmentioning
confidence: 99%
“…(A) Long-read data [LR] were used to generate the initial draft assembly (B), from which we identified and extracted the circular assembly for OrNV (C) and mitochondria (D). Short-read data [SR] were used to remove erroneous indels in homopolymers (E-F) to produce analysis-ready assemblies [25], [26]. The remainder of the draft assembly (G) was linearized (H) and short reads [SR] were used to remove erroneous indels (I) in each scaffold, producing an initial polished nuclear genome assembly for Oryctes rhinoceros (J).…”
Section: Resultsmentioning
confidence: 99%
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