Characterization of four mitochondrial genomes of Crambidae  (Lepidoptera, Pyraloidea) and phylogenetic implications

Wu, Yupeng; Liu, Xiaoran; Zhang, Yulei; Fang, Hui; Lu, Junjiao; Wang, Juping

doi:10.1002/arch.21914

Cited by 7 publications

(5 citation statements)

References 44 publications

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“…Within the Crambidae, the ‘PS clade’ Pyraustinae and Spilomelinae formed sister lineages, while the ‘non-PS clade’ was divided into two sister lineages: one group included Glaphyriinae and Odontiinae, while the other group included the remaining four subfamilies (Schoenobiinae, Crambinae, Scopariinae, and Nymphulinae). The family-level topology of the phylogenetic analyses can be described as follows: (Glaphyriinae + Odontiinae) (Schoenobiinae + (Crambinae + (Scopariinae + Nymphulinae))) and the results were strongly supported (BS ≥ 95, PP = 1.00) and consistent with the previous research results [ 1 , 46 ]. Nevertheless, since we identified a separate sample in the research, a more desirable realization of the Pyraloidea mitogenome requires an extension of the genome and taxon samplings, especially in the Orybina and Chrysauginae.…”

Section: Resultssupporting

confidence: 89%

The Complete Mitochondrial Genome of Box Tree Moth Cydalima perspectalis and Insights into Phylogenetics in Pyraloidea

Gao

Zhang

Wang

et al. 2023

Animals

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To resolve and reconstruct phylogenetic relationships within Pyraloidea based on molecular data, the mitochondrial genome (mitogenome) was widely applied to understand phylogenetic relations at different taxonomic levels. In this research, a complete mitogenome of Cydalima perspectalis was recorded, and the phylogenetic position of C. perspectalis was inferred based on the sequence in combination with other available sequence data. According to the research, the circular mitochondrial genome is 15,180 bp in length. It contains 22 transfer RNA genes (tRNAs), two ribosomal RNA genes (rRNAs), 13 typical protein-coding genes (PCGs), and a non-coding control region. The arrangement of a gene of the C. perspectalis mitogenome is not the same as the putative ancestral arthropod mitogenome. All of the PCGs are initiated by ATN codons, except for the cytochrome c oxidase subunit 1 (cox1) gene, which is undertaken by CGA. Five genes have incomplete stop codons that contain only ‘T’. All tRNA genes display a typical clover–leaf structure of mitochondrial tRNA, except for trnS1 (AGN). The control region contained an ‘ATAGG(A)’-like motif followed by a poly-T stretch. Based on the mitochondrial data, phylogenetic analysis within Pyraloidea was carried out using Bayesian inference (BI) and maximum likelihood (ML) analyses. Phylogenetic analysis showed that C. perspectalis is more closely related to Pygospila tyres within Spilomelinae than those of Crambidae and Pyraloidea.

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Section: Resultssupporting

confidence: 89%

The Complete Mitochondrial Genome of Box Tree Moth Cydalima perspectalis and Insights into Phylogenetics in Pyraloidea

Gao

Zhang

Wang

et al. 2023

Animals

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“…6). These results are consistent with numerous reports in recent years (Zhu et (Gao et al, 2023;Wu et al, 2023). In this article, the relationship among the three taxa appears to be ((Nymphulinae + Scopariinae) + (Crambinae + Schoenobiinae)), but with low bootstrap support.…”

Section: Phylogenetic Analysissupporting

confidence: 93%

“…One branch is composed of four subfamilies of the Pyralidae, while the other branch is composed of seven subfamilies of the Crambidae. This strongly supports the monophyly of Pyralidae and Crambidae (Qi et al, 2021;Wu et al, 2023). Except for the absence of the mitogenome in Chrysauginae, there are ve subfamilies within Pyralidae.…”

Section: Phylogenetic Analysissupporting

confidence: 76%

“…Moreover, the entire mitochondrial genome can also provide genome-level characteristics for phylogenetic research such as gene arrangement and composition (Tyagi et al, 2020;Yi et al, 2022). With the advancements in sequencing techniques, numerous complete mitogenomes have been obtained and applied in a wide range of evolutionary studies in recent years (Chen et al, 2022;Wu et al, 2023).…”

Section: Introductionmentioning

confidence: 99%

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The Complete Mitochondrial Genome of Chilo infuscatellus (Lepidoptera: Pyralidae), and Related Phylogenetic Analysis

Yi,

Liu,

Mao

et al. 2024

Biochem Genet

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The Chilo infuscatellus (Lepidoptera: Pyralidae) is a signi cant pest of sugarcane in China. The genomelevel characteristics of this pest are important genetic resources for identi cation, phylogenetic analysis, and even management. In the present study, the complete mitogenome of C. infuscatellus was sequenced and characterized. The complete mitogenome of C. infuscatellus is 15,252 bp in length and comprises 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), 2 ribosomal RNA genes (rRNAs), and an A + T-rich region. Except for the CGA codon for the cox1 gene, the PCGs initiated with ATN codons (ATG, ATT, and ATA). These PCGs terminated with TAA or an incomplete T. Except for the loss of the "DHU" arm for trnS1, the tRNA genes were folded into the typical cloverleaf structure. The A + T-rich region has a high AT content of 96.19% and contains the motifs "ATAGA" and "ATTTA", as well as a 19 bp poly-T stretch and microsatellite regions. The C. infuscatellus mitogenome exhibits a conserved gene order among lepidopteran insects, with a rearrangement of the trnM gene compared to the ancestral mitogenome. Phylogenetic analysis based on the 13 PCGs using Bayesian inference (BI) and maximum likelihood (ML) methods con rmed the monophyly of Pyralidae and Crambidae within Pyraloidea. The relationships between subfamilies in Pyralidae can be described as (Galleriinae + (Phycitinae + (Pyralinae + Epipaschiinae))). The "PS clade" and "non-PS clade" were formed in the family Crambidae.Our results enrich the genetic resources of sugarcane borers and provide insights into the phylogeny of Pyraloidea insects.

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“…TrnS1 exhibited variation in the presence of the dihydrouridine arm, type of anticodon, and copy number, considered an important indicator of adaptive evolution. In insects, the lack of the dihydrouridine arm in tRNA is not rare ( Yang et al, 2019c ; Wei et al, 2021 ; Wu et al, 2022 ), and isoacceptor tRNAs (which have a different anticodon but charge the same amino acid) may be related to codon usage patterns and selection ( Oliveira et al, 2008 ; Behura et al, 2010 ). Moreover, observations of more than 22 tRNAs had been reported in only a few insect mitogenomes.…”

Section: Discussionmentioning

confidence: 99%

Comparative mitogenomic and evolutionary analysis of Lycaenidae (Insecta: Lepidoptera): Potential association with high-altitude adaptation

Chen

et al. 2023

Front. Genet.

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Harsh environments (e.g., hypoxia and cold temperatures) of the Qinghai–Tibetan Plateau have a substantial influence on adaptive evolution in various species. Some species in Lycaenidae, a large and widely distributed family of butterflies, are adapted to the Qinghai–Tibetan Plateau. Here, we sequenced four mitogenomes of two lycaenid species in the Qinghai–Tibetan Plateau and performed a detailed comparative mitogenomic analysis including nine other lycaenid mitogenomes (nine species) to explore the molecular basis of high-altitude adaptation. Based on mitogenomic data, Bayesian inference, and maximum likelihood methods, we recovered a lycaenid phylogeny of [Curetinae + (Aphnaeinae + (Lycaeninae + (Theclinae + Polyommatinae)))]. The gene content, gene arrangement, base composition, codon usage, and transfer RNA genes (sequence and structure) were highly conserved within Lycaenidae. TrnS1 not only lacked the dihydrouridine arm but also showed anticodon and copy number diversity. The ratios of non-synonymous substitutions to synonymous substitutions of 13 protein-coding genes (PCGs) were less than 1.0, indicating that all PCGs evolved under purifying selection. However, signals of positive selection were detected in cox1 in the two Qinghai–Tibetan Plateau lycaenid species, indicating that this gene may be associated with high-altitude adaptation. Three large non-coding regions, i.e., rrnS-trnM (control region), trnQ-nad2, and trnS2-nad1, were found in the mitogenomes of all lycaenid species. Conserved motifs in three non-coding regions (trnE-trnF, trnS1-trnE, and trnP-nad6) and long sequences in two non-coding regions (nad6-cob and cob-trnS2) were detected in the Qinghai-Tibetan Plateau lycaenid species, suggesting that these non-coding regions were involved in high-altitude adaptation. In addition to the characterization of Lycaenidae mitogenomes, this study highlights the importance of both PCGs and non-coding regions in high-altitude adaptation.

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Characterization of four mitochondrial genomes of Crambidae (Lepidoptera, Pyraloidea) and phylogenetic implications

Cited by 7 publications

References 44 publications

The Complete Mitochondrial Genome of Box Tree Moth Cydalima perspectalis and Insights into Phylogenetics in Pyraloidea

The Complete Mitochondrial Genome of Box Tree Moth Cydalima perspectalis and Insights into Phylogenetics in Pyraloidea

The Complete Mitochondrial Genome of Chilo infuscatellus (Lepidoptera: Pyralidae), and Related Phylogenetic Analysis

Comparative mitogenomic and evolutionary analysis of Lycaenidae (Insecta: Lepidoptera): Potential association with high-altitude adaptation

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