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Characterization and phylogenetic analysis of the mitochondrial genome of Macdunnoughia hybrida (Lepidoptera: Noctuidae: Plusiinae).

ABSTRACT: Macdunnoughia hybrida is a polyphagous herbivorous moth within the family Noctuidae. In this study, we sequenced and analyzed the complete mitochondrial genome (mitogenome) of M. hybrida. This mitogenome was 15,382 bp long and encoded 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), and two ribosomal RNA unit genes (rRNAs). Except for cox1 started with CGA, all other PCGs started with the standard ATN codons. Most of the PCGs terminated with the stop codon TAA, whereas cox1, cox2 and nad4 end with the incomplete codon T--. The whole mitogenome exhibited heavy AT nucleotide bias (80.7%). Gene order was conserved and identical to most other previously sequenced Noctuidae. Phylogenetic analysis positioned M. hybrida in a well-supported clade with Diachrysia nadeja and three Ctenoplusia species. The relationships (Catocalinae + (Plusiinae + (Acronictinae + (Heliothinae + (Amphipyrinae + (Hadeninae + Noctuinae)))))) were supported within Noctuidae.

SUBMITTER: Zhang Y

PROVIDER: S-EPMC8284135 | biostudies-literature |

REPOSITORIES: biostudies-literature

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Mitochondrial genome of Diachrysia nadeja (Lepidoptera: Noctuoidea: Noctuidae) and phylogenetic analysis.

Project description:Diachrysia nadeja is a polyphagous herbivorous moth within the family Noctuidae. In this study, we sequenced and analyzed the complete mitochondrial genome (mitogenome) of D. nadeja. This mitogenome was 15,242 bp long and encoded 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs) and 2 ribosomal RNA unit genes (rRNAs). Gene order was conserved and identical to most other previously sequenced Noctuidae. Except for cox1 started with CGA, all other PCGs started with the standard ATN codons. Most of the PCGs terminated with the stop codon TAA, whereas cox1, cox2, and nad4 end with the incomplete codon T-. The whole mitogenome exhibited heavy AT nucleotide bias (80.5%). Phylogenetic analysis showed that D. nadeja got together with three Ctenoplusia species (C. agnata, C. limbirena, and C. albostriata) with high support value, indicating Diachrysia had a closer relationship with Ctenoplusia within Noctuidae.

| S-EPMC7889200 | biostudies-literature

Characterisation and phylogenetic analysis of the complete mitochondrial genome of Ctenoplusia albostriata (Lepidoptera: Noctuidae: Plusiinae).

Project description:Ctenoplusia albostriata is a pest of composite plants such as Calendula officinalis L. and Dahlia pinnata. In this study, we sequenced and analyzed the complete mitochondrial genome (mitogenome) of C. albostriata. This mitogenome was 15,284?bp long and encoded 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), and 2 ribosomal RNA unit genes (rRNAs). Gene order was conserved and was found to be identical to most other previously sequenced Noctuidae. The whole mitogenome exhibited heavy AT nucleotide bias (80.9%). Except for cox1 started with CGA, all other PCGs started with the standard ATN codons. Most of the PCGs terminated with the stop codon TAA, whereas cox1, cox2 and nad4 end with the incomplete codon T--. Phylogenetic analysis showed that the mitogenome of C. albostriata was similar to C. agnata and C. limbirena, and the subfamily Plusiinae was close to Acronictinae, Heliothinae, Amphipyrinae, Noctuinae, and Hadeninae.

| S-EPMC7707265 | biostudies-literature

First mitochondrial genome from Yponomeutidae (Lepidoptera, Yponomeutoidea) and the phylogenetic analysis for Lepidoptera.

Project description:The complete mitochondrial genome (mitogenome) of Yponomeuta montanatus is sequenced and compared with other published yponomeutoid mitogenomes. The mitogenome is circular, 15,349 bp long, and includes the typical metazoan mitochondrial genes (13 protein-coding genes, two ribosomal RNA genes, and 22 transfer RNA genes) and an A + T-rich region. All 13 protein-coding genes use a typical start codon ATN, the one exception being cox1, which uses CGA across yponomeutoid mitogenomes. Comparative analyses further show that the secondary structures of tRNAs are conserved, including loss of the Dihydorouidine (DHU) arm in trnS1 (AGN), but remarkable nucleotide variation has occurred mainly in the DHU arms and pseudouridine (T?C) loops. A + T-rich regions exhibit substantial length variation among yponomeutoid mitogenomes, and conserved sequence blocks are recognized but some of them are not present in all species. Multiple phylogenetic analyses confirm the position of Y. montanatus in Yponomeutoidea. However, the superfamily-level relationships in the Macroheterocera clade in Lepidoptera recovered herein show considerable difference with that recovered in previous mitogenomic studies, raising the necessity of extensive phylogenetic investigation when more mitogenomes become available for this clade.

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Characterization and Phylogenetic Analysis of the Complete Mitochondrial Genome of Laelia suffusa (Lepidoptera: Erebidae, Lymantriinae).

Project description:In this study, the complete mitochondrial genome of a white tussock moth, Laelia suffusa (Walker, 1855) (Lepidoptera: Erebidae, Lymantriinae), was sequenced and annotated. The genome sequence was 15,502 bp in length and comprised 13 PCGs, 2 rRNAs, 22 tRNAs, and a single noncoding control region (CR). The nucleotide composition of the genome was highly A + T biased, accounting for 79.04% of the whole genome and with a slightly positive AT skewness (0.015). Comparing the gene order with the basal species of Lepidoptera, a typical trnM rearrangement was detected in the mitogenome of L. suffusa. Besides, the trnM rearrangement was found at the head of trnI and trnQ, rather than at the back. The 13 PCGs used ATN as their start codons, except for the cox1 which used CGA. Out of the 22 tRNAs, only 1 tRNA (trnS1) failed to fold in a typical cloverleaf secondary structure. The conserved motif 'ATAGA + poly-T' was detected at the start of the control region which was similar to other Lepidoptera species. In total, 10 overlapping regions and 19 intergenic spacers were identified, ranging from 1 to 41 and 2 to 73 bp, respectively. Phylogenetic analysis showed that Lymantriinae was a monophyletic group with a high support value and L. suffusa was closely related to tribe Orgyiini (Erebidae, Lymantriinae). Moreover, the phylogenetic relationship of Noctuoidea (Lepidoptera) species was reconstructed using two datasets (13 PCGs and 37 genes) and these supported the topology of (Notodontidae + (Erebidae + (Nolidae + (Euteliidae + Noctuidae)))).

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Characterization of the complete mitochondrial genome of Ypthima baldus (Lepidoptera: Satyrinae) with phylogenetic analysis.

Project description:The complete mitochondrial genome of Ypthima baldus was determined and analysed for the first time. It is a circular molecule of 15,304 bp in length and contains 13 protein-coding genes (PCGs), 2 rRNA genes (12S and 16S), 22 tRNA genes (tRNAs), and 1 AT-rich region. The total base composition is 38.6% of A, 7.5% of G, 42.2% of T, and 11.7% of C, respectively. In addition, phylogenetic analysis was carried out with 13 PCGs using the Bayesian Inference (BI) method. The complete mitogenome of Y. baldus will play an important role in population genetics and phylogenetic studies of the species in the future.

| S-EPMC7748753 | biostudies-literature

Complete mitochondrial genome of Spodoptera littoralis (Lepidoptera: Noctuidae) from Egypt.

Project description:The polyphagous cotton leafworm (Spodoptera littoralis) is one of the most destructive herbivorous insects worldwide. The present study reports the complete mitochondrial genome of S. littoralis collected from Egypt. The circular-mapping mitogenome was 15,408 bp in length with an overall A + T content of 81.1%, encoding a common set of 37 genes, including 13 protein-coding genes (PCGs), 22 tRNA genes, and two rRNA genes. Most PCGs were found to use conventional ATN as the start codon and TAN as the stop codon. The phylogenetic tree based on the nucleic acid sequences of 13 shared PCGs of 29 Noctuidae species revealed that S. littoralis and Spodoptera litura are sister species. The data in this study will be helpful to understand geographical genetic variations, phylogenetic relationships, and species identification of S. littoralis.

| S-EPMC7872533 | biostudies-literature

The mitochondrial genome of the western bean cutworm, Striacosta albicosta (Lepidoptera: Noctuidae).

Project description:The complete 15,553?bp mitochondrial genome of the western bean cutworm, Stricosta albicosta, (Lepidoptera: Noctuidae) was assembled from paired end Illumina HiSeq2500 read data. Annotation showed 13 predicted protein coding genes (PCGs), 22 tRNAs and 2 rRNAs have an order and orientation typical of insect mitochondrial genomes, and the derived rearrangement of tRNA-Met, -Ile and -Gln upstream of nad2 as in other Lepidoptera. A 79.3% A?+?T content resulted in a bias for codons with A or T in the 3rd position, and prevalence of synonymous substitutions suggest the effects of purifying selection on the mitochondrial genome sequence. Two microsatellite repeat motifs, (CA)10(AT)19 and (AT)12, are respectively located in intergenic spaces between tRNA-Glu and -Phe and tRNA-Leu and 16S rRNA. Mitochondrial phylogenomics was able to resolve sub-families within the Noctuidae, and suggest analogous analyses may be applicable across other lepidopteran Families.

| S-EPMC7799526 | biostudies-literature

The Complete Mitochondrial Genome of Brachmia macroscopa (Lepidoptera: Gelechiidae) and Its Related Phylogenetic Analysis.

Project description:The sweet potato leaf folder, Brachmia macroscopa, is an important pest in China. The complete mitogenome, which consists of 13 protein-coding genes (PCGs), 22 transfer RNA genes, two ribosomal RNA genes, and an A + T-rich region, was sequenced and found to be 15,394 bp in length (GeneBank no. KT354968). The gene order and orientation of the B. macroscopa mitogenome were similar to those of other sequenced lepidopteran species. All of the PCGs started with ATN as the canonical start codon except for cox1, which started with CGA. In regard to stop codons, most PCGs stopped at TAA except for cox2, which stopped at TA, and nad4, which stopped at a single T. Thirteen PCGs of the available species (33 taxa) were used to demonstrate phylogenetic relationships. The ditrysian cluster was supported as a monophyletic clade at high levels by using maximum likelihood and Bayesian methods. The apoditrysian group, covering the Gelechioidea, formed a monophyletic clade with a bootstrap value of 88% and a posterior probability of 1.00. The superfamily Gelechioidea was supported as a monophyletic lineage by a posterior probability of 1.00.

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Project description:The complete mitochondrial genome of Appias albina (Lepidoptera: Pieridae) was firstly sequenced and characterized in our study. The total length of mitogenome is 15,193 bp and contains 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, and 1 A + T-rich region. The overall nucleotide composition was 38.4% of A, 8.0% of G, 40.9% of T, and 12.4% of C. Phylogenetic tree was reconstructed using Bayesian Inference (BI) to validate the taxonomic status of A. albina, exhibiting the close relationship with Appias remedios.

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The complete mitochondrial genome of Dudusa sphingiformis (Lepidoptera: Notodontidae) and phylogenetic analysis.

Project description:Dudusa sphingiformis is an important lepidopteran pest widely distributed in tropical and subtropical zones of Asia. In this paper, the complete mitochondrial genome (mitogenome) of D. sphingiformis was determined by next-generation sequencing. The mitogenome was 15,806 bp in length, comprising 13 protein-coding genes (PCGs), 22 tRNA genes, two rRNA genes, and an AT-rich control region (D-loop). The gene arrangement of this mitogenome was identical to that of the previous studies of Notodontidae moths. Almost all the PCGs initiated with typical ATN codons, except for cox1 with CGA. Among them, nine PCGs terminated with TAA or TAG, while other four PCGs (cox1, cox2, nad5, and nad4) with incomplete stop codon T. All the 22 tRNAs had the typical cloverleaf structure, except for trnS1, whose dihydrouridine (DHU) arm forms a simple loop. Phylogenetic analysis based on the concatenated nucleotide sequences of 13 PCGs indicated that D. sphingiformis was more closely related to other species of family Notodontidae, forming a monophyletic group, with well-resolved relationships among five family of Noctuoidea.

| S-EPMC8451694 | biostudies-literature

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