The complete mitochondrial genome of <i>Amphinemura bulla</i> Shimizu, 1997 (Plecoptera: Nemouridae) from Japan

Wang, Ying; Cao, Jinjun; Murányi, Dávid; Chen, Xiling; Yan, Fenming

doi:10.1080/23802359.2021.1884029

Cited by 5 publications

(8 citation statements)

References 10 publications

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“…Similarly, the high A + T content value among the 3 partitions also occurs in the partial mitogenome of L. tumana ( Table 2 ). As with published stoneflies ( Chen and Du 2017a , 2017b , Wang et al 2017 , 2021 , Cao et al 2019 , 2021 , Chen et al 2020 , Zhao et al 2020 , Guo et al 2022 ) and other insects ( Wei et al 2010a ), all 3 species showed a positive AT-skew and negative GC-skew in the whole mitogenome ( Table 2 ).…”

Section: Resultssupporting

confidence: 72%

“…Differences in gene length among 3 Nemourinae species were primarily caused by insertions/deletions in the intergenic spacers and control region ( Supplementary Tables S1 – S3 ). The gene order of 3 Nemourinae mitogenomes is the same as all previously published stonefly mitogenomes 22–30 ( Chen and Du 2017a , 2017b , Wang et al 2017 , 2021 , Cao et al 2019 , 2021 , Chen et al 2020 , Zhao et al 2020 , Guo et al 2022 ), as well as the ancestral gene order of Drosophila yakuba ( Clary and Wolstenholme 1985 ).…”

Section: Resultsmentioning

confidence: 80%

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Mitochondrial genomes of Nemourinae species (Plecoptera: Nemouridae) and the phylogenetic implications

Wang,

Guo,

Yue

et al. 2024

Journal of Insect Science

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Currently, the classification system of 2 subfamilies within Nemouridae has been widely accepted. However, monophyly of 2 subfamilies has not been well supported by molecular evidence. To date, only mitogenomes from genus Nemoura of the subfamily Nemourinae were used in previous phylogenetic studies and produced conflicting results with morphological studies. Herein, we analyzed mitogenomes of 3 Nemourinae species to reveal their mitogenomic characteristics and to examine genus-level classification among Nemouridae. In this study, the genome organization of 3 mitogenomes is highly conserved in gene order, nucleotide composition, codon usage, and amino acid composition. In 3 Nemourinae species, there is a high variation in nucleotide diversity among the 13 protein-coding genes (PCGs). The Ka/Ks values for all PCGs were far lower than 1, indicating that these genes were evolving under purifying selection. The phylogenetic analyses highly support Nemurella as the sister group to Ostrocerca. Meanwhile, Nemoura is recovered as the sister group of Malenka; they are grouped with other Amphinemurinae and emerged from a paraphyletic Nemourinae. More molecular data from different taxonomic groups are needed to understand stoneflies phylogeny and evolution.

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Section: Resultssupporting

confidence: 72%

Section: Resultsmentioning

confidence: 80%

Mitochondrial genomes of Nemourinae species (Plecoptera: Nemouridae) and the phylogenetic implications

Wang,

Guo,

Yue

et al. 2024

Journal of Insect Science

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“…The genus Amphinemura that belongs to Amphinemurinae was sister to Nemoura of the subfamily Nemourinae (PP = 94, BP = 1.00). The sister relationship between Amphinemura and Nemoura is not consistent with the traditional classification [53] but consistent with some mitogenome analyses [8,54]. Considering that only one genera data of Nemourinae is available, more sampling from different genera of this subfamily is needed to test this problem.…”

Section: Phylogenetic Analysismentioning

confidence: 68%

Mitochondrial Genome of Strophopteryx fasciata (Plecoptera: Taeniopterygidae), with a Phylogenetic Analysis of Nemouroidea

Guo

Dong

et al. 2022

Genes

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Taeniopterygidae is a medium-sized family of stoneflies. The phylogeny of Taeniopterygidae was widely accepted based on the morphological analyses. However, there are different opinions based on molecular data. To date, only two taeniopterygid mitochondrial genomes (mitogenomes) were available, and more sampling is needed to obtain precise phylogenetic relationships. In this research, the Strophopteryx fasciata mitogenome was sequenced and analyzed. The complete mitogenome of S. fasciata was 15,527 bp in length and contained 37 genes and a non-coding control region. Among taeniopterygid mitogenomes, the length variation was minimal in protein-coding genes (PCGs), transfer RNA genes (tRNAs) and ribosomal RNA genes (rRNAs), but very different in the control region. Similar to mitogenomes of other taeniopterygid species, the S. fasciata mitogenome was consistently AT biased and displayed positive AT- and negative GC-skews of the whole mitogenome. Most PCGs used ATN as the start codon and TAA/TAG as the stop codon. The stop codons were far less variable than the start codons in taeniopterygid mitogenomes. All Ka/Ks ratios were less than 1, indicating the presence of purifying selection in these genes. The secondary structures of transfer and ribosomal RNA genes of S. fasciata mitogenome are highly conserved with other taeniopterygid species. In the control region of the S. fasciata mitogenome, some essential elements (tandem repeats, stem–loop structures, and poly−N stretch, etc.) were observed. Two phylogenetic trees were inferred from Bayesian inference (BI) and Maximum Likelihood (ML) methods generated the identical topology across the PCGR dataset. The relationships of five families in Nemouroidea were recovered as Leuctridae + ((Capniidae + Taeniopterygidae) + (Nemouridae + Notonemouridae)). These results will help us understand the mitogenome structure of taeniopterygid species and the evolutionary relationship within Plecoptera.

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“…Eleven PCGs had TAN (TAA or TAG) as their last codon; however, cox1 and nad5 both had shortened termination codons and concluded with T (Table S1). The use of incomplete stop codon T is mutual in most of the stoneflies [20,23,27,28,40,57] and other animals' mitogenome [5], forming a comprehensive TAA terminal signal via post-transcriptional polyadenylation [58,59].…”

Section: Protein Coding Genesmentioning

confidence: 99%

The First Complete Mitochondrial Genome of Genus Isocapnia (Plecoptera: Capniidae) and Phylogenetic Assignment of Superfamily Nemouroidea

Rehman

Huo

2023

Genes

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Capniidae are a family of stoneflies, also known as snow flies, who emerge in winter. The phylogeny of Capniidae is widely accepted to be based on morphological analysis. Until now, only five Capniidae mitochondrial genomes have been sequenced so far. In addition, sampling is required to determine an accurate phylogenetic association because the generic classification of this family is still controversial and needs to be investigated further. In this study, the first mitogenome of genus Isocapnia was sequenced with a length of 16,200 bp and contained 37 genes, including a control region, two rRNAs, 22 tRNAs, and 13 PCGs, respectively. Twelve PCGs originated with the common start codon ATN (ATG, ATA, or ATT), while nad5 used GTG. Eleven PCGs had TAN (TAA or TAG) as their last codon; however, cox1 and nad5 had T as their final codon due to a shortened termination codon. All tRNA genes demonstrated the cloverleaf structure, which is distinctive for metazoans excluding the tRNASer1 (AGN) that missed the dihydrouridine arm. A Phylogenetic analysis of the superfamily Nemouroidea was constructed using thirteen PCGs from 32 formerly sequenced Plecoptera species. The Bayesian inference and maximum likelihood phylogeny tree structures derived similar results across the thirteen PCGs. Our findings strongly supported Leuctridae + ((Capniidae + Taeniopterygidae) + (Nemouridae + Notonemouridae)). Ultimately, the best well-supported generic phylogenetic relationship within Capniidae is as follows; (Isocapnia + (Capnia + Zwicknia) + (Apteroperla + Mesocapnia)). These findings will enable us to better understand the evolutionary relationships within the superfamily Nemouroidea and the generic classification and mitogenome structure of the family Capniidae.

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The complete mitochondrial genome of Amphinemura bulla Shimizu, 1997 (Plecoptera: Nemouridae) from Japan

Cited by 5 publications

References 10 publications

Mitochondrial genomes of Nemourinae species (Plecoptera: Nemouridae) and the phylogenetic implications

Mitochondrial genomes of Nemourinae species (Plecoptera: Nemouridae) and the phylogenetic implications

Mitochondrial Genome of Strophopteryx fasciata (Plecoptera: Taeniopterygidae), with a Phylogenetic Analysis of Nemouroidea

The First Complete Mitochondrial Genome of Genus Isocapnia (Plecoptera: Capniidae) and Phylogenetic Assignment of Superfamily Nemouroidea

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