Molecular phylogeny inferred from the mitochondrial genomes of Plecoptera with Oyamia nigribasis (Plecoptera: Perlidae)

Abstract

In this study, the mitochondrial genome of the stonefly, Oyamia nigribasis Banks, 1920 (Plecoptera: Perlidae), was sequenced and compared with the mtDNA genomes of 38 other stoneflies and two Ephemerae. The O. nigribasis mitogenome is a circular 15,923 bp molecule that encodes a large, noncoding control region (CR) and 37 typical mtDNA genes; these include 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), and two ribosomal RNA genes (rRNAs), respectively. Most of the PCGs initiated with ATN and terminated with TAN. The dihydrouridine (DHU) arm of tRNASer (AGN) was missing, whereas the other 21 tRNAs all exhibited the typical cloverleaf secondary structure. Stem-loop (SL) structures and tandem repeats were identified in the CR. Phylogenetic analyses using Bayesian inference and maximum likelihood were undertaken to determine relationships between stoneflies. Results indicated that the Antarctoperlaria, which contains Gripopterygidae, was absolutely separated from Arctoperlaria; this finding agrees with morphology. Finally, the overall relationships could be summarized as follows ((((Notonemouridae + Nemouridae) + Leuctridae) + (Scopuridae + (Capniidae + Taeniopterygidae))) + (((Perlodidae + Chloroperlidae) + Perlidae) + (Pteronarcyidae + (Peltoperlidae + Styloperlidae))) + ((Diamphipnoidae + Eustheniidae) + Gripopterygidae)).

Mitochondrial Genomes of the Genus Claassenia (Plecoptera: Perlidae) and Phylogenetic Assignment to Subfamily Perlinae

“…The best nucleotide substitution model was determined with MEGA v. 6.0 using the Bayesian Information Criterion (BIC) and the GTR+G+I model was predetermined for analyses. Using MrBayes v. 3.1.2 (http://morphbank.ebc.uu.SE/mrbayes/, 7 November 2021) with 20 million generations to conduct Bayesian inference analysis; sampling every 100 generations with four chains (three hot and one cold), and a burn-in of 25% trees [13,33]. IQ-Tree v. 1.6.12 (http://www.iqtree.org/, 7 November 2021) [34,35] was used for maximum likelihood with 1000 Ultrafast bootstrap approximations.…”

“…Analysis of mitochondrial genomes is widely used in evolutionary biology, population genetics, taxonomy, and phylogenetics [ 1 ] and has been used to resolve phylogeny in many insect species [ 2 , 3 , 4 , 5 , 6 , 7 , 8 , 9 , 10 , 11 , 12 , 13 ]. A typical mitogenome consists of a noncoding sequence called the control region (CR) and two rRNAs, 22 tRNAs, and 13 protein-coding genes (PCGs) [ 14 , 15 ].…”

First instar nymphs of two peltoperlid stoneflies (Insecta, Plecoptera, Peltoperlidae)

“…However, despite extensive research having been conducted by multiple stonefly researchers, the systematic position of Peltoperlidae in Plecoptera remains to be clarified. Groups that have been proposed as sister group candidates are Pteronarcyidae (Mtow and Machida 2018), Styloperlidae (e.g., Uchida and Isobe 1989;Zwick 2000;Wang et al 2017Wang et al , 2019Shen and Du 2020;Zhao et al 2020), Perlidae (e.g., Chen and Du 2017b;Ding et al 2019), Austroperlidae + Scopuridae (Illies 1965), Pteronarcyidae + Styloperlidae (Ding et al 2019), Styloperlidae + Perlidae (Chen and Du 2017a), Chloroperlidae + Perlidae (Ding et al 2019), Perloidea (= Perlidae + Chloroperlidae + Perlodidae) (Zwick 1973(Zwick , 1980Nelson 1984;Thomas et al 2000), Pteronarcyidae + Perloidea (e.g., Ricker 1952;Terry 2004;Kjer et al 2006;Shen and Du 2019;South et al 2021), (Pteronarcyidae + Chloroperlidae) + (Styloperlidae + Perlidae) (Chen and Du 2017a), (Pteronarcyidae + Styloperlidae) + Perloidea , (Taeniopterygidae + (Nemouridae + Notonemouridae)) + (Leuctridae + Capniidae) (Ricker 1950), ((Eustheniidae + Diamphipnoidae) + Austroperlidae) + (Gripopterygidae + (Capniidae + (Scopuridae + (Nemouridae + Notonemouridae)))) (Terry and Whiting 2005), and (Pteronarcyidae + Perloidea) + ((Taeniopterygidae + Leuctridae) + ((Scopuridae + Notonemouridae) + (Capniidae + Antarctoperlaria))) (Kjer et al 2006).…”

Complete Mitochondrial Genome Sequence Analysis and Phylogenetic Location Determination of Hydropsyche Fryeri (Insecta: Trichoptera)

“…In general, metazoan mitochondrial genomes consist of a non-coding sequence called the control region (CR) and 37 genes, including 13 protein-coding genes (PCGs), 22 tRNAs and 2 rRNAs [6] . Mitochondrial cytochrome oxidase (COX 1) and (COX 2) [7] and the tRNA gene sequences [8] are used for the classi cation of species [9] and infraspeci c category identi cation [10] . In this study, we determined the mitochondrial DNA sequence of Hydropsyche fryeri and analysed the phylogenetic relationships between this species and other related species.…”