The complete mitochondrial genome of <i>Myzus persicae</i> (Sulzer, 1776; Hemiptera: Aphididae) isolated in Korea

Jung, Young Jun; Jo, Jihoon; Bae, Yoonhyuk; Xi, Hong; Seol, Min-A; Yoo, Su-Hyang; Park, Jongsun; Park, Chungoo

doi:10.1080/23802359.2020.1842817

Cited by 8 publications

(8 citation statements)

References 20 publications

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“…The second had few interspecific variations and was named ‘putative intraspecific variations’. The latter was combined with the intraspecific variations identified from M. differentialis and several pest species including Laodelphax striatellus (Delphacidae) (Park et al 2019a; Seo et al 2019a) , Aphis gossypii (Aphididae) (Bae et al 2020; Kim et al 2021d; Park et al 2019d), Myzus persicae (Aphididae) (Jung et al 2021), Nilaparvata lugens (Delphacidae) (Choi et al 2019; Choi et al 2020; Lv et al 2015; Park et al 2019b), Sogatella furcifera (Delphacidae) (Park et al, 2021e), Alphitobius diaperinus (Tenebrionidae) (Hong et al 2020a), and Spodoptera frugiperda (Noctnidae) (Seo et al 2019b). There were fewer interspecific variations among certain mitochondrial genome pairs of Fruhstorferiola and Sinopodisma than there were among those of M. differentialis .…”

Section: Resultsmentioning

confidence: 99%

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Comprehensive analysis of the complete mitochondrial genome ofMelanoplus differentialis(Acrididae: Melanoplinae) captured in Korea

Kim

Lee

et al. 2023

Entomological Research

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In this study, we determined the complete mitochondrial genome of the invasive insect species Melanoplus differentialis captured in Korea. The complete mitochondrial genome of M. differentialis is 15,625 bp long and comprises 13 protein‐coding genes, two ribosomal RNA genes, and 22 transfer RNAs, with a GC ratio of 25.2%. In total, 353 SNPs and 11 INDEL regions (total length 67 bp) were found against the previously sequenced M. differentialis mitochondrial genome recorded as public genome data. The number of interspecific variations was greater than the number of intraspecific variations in this insect. Phylogenetic tree analysis showed that the mitochondrial genome clustered the Melanoplus clade with two previously reported Melanoplus sequences. However, the sequences were not divided at the species‐level clade possibly as a consequence of misidentification caused by an error in the public database. Our results extend the molecular database status of Melanoplus by providing a novel complete mitochondrial genome sequence for M. differentialis that could serve as reference for further molecular studies.

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Section: Resultsmentioning

confidence: 99%

“…), Aphis gossypii (Aphididae)(Bae et al 2020;Kim et al 2021d;Park et al 2019d), Myzus persicae (Aphididae)(Jung et al 2021), Nilaparvata lugens (Delphacidae)(Choi et al 2019;Choi et al 2020;Lv et al 2015;Park et al 2019b), Sogatella furcifera (Delphacidae)(Park et al, 2021e), Alphitobius diaperinus (Tenebrionidae)(Hong et al 2020a),…”

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confidence: 99%

Comprehensive analysis of the complete mitochondrial genome ofMelanoplus differentialis(Acrididae: Melanoplinae) captured in Korea

Kim

Lee

et al. 2023

Entomological Research

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“…NGS raw reads of truffle (SRA accession: SRR5005499) were downloaded from NCBI and processed under the Genome Information System (GeIS, http://geis.infoboss.co.kr) which has been utilized in various genomics studies. 7–9,13,14,17,19,20,25–83 SRR5005499 dataset used in this study contains 29,010,538 100-bp-reads (2,901,053,800 bp). In the pipeline, de novo assembly and confirmation were done by Velvet v1.2.10…”

Section: Methodsmentioning

confidence: 99%

The investigation of intraspecific characteristics and comparative analyses of the complete mitochondrial genome of Stegobium paniceum (Linnaeus, 1758) (Coleoptera: Ptinidae) assembled from public NGS raw reads of the black truffle, Tuber melanosporum

Park¹,

Lee²,

Park³

2022

Science Progress

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Due to the rapid development of NGS technologies, a huge amount of NGS raw reads have been accumulated in public repositories, such as the Short Read Archive of NCBI. We successfully rescued the complete mitochondrial genome of Stegobium paniceum, a drug store beetle, from public NGS raw reads of truffle generated from the whole genome project. The circular mitogenome of S. paniceum is 15,474 bp long including 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNAs, and a single large non-coding region of 803 bp. Intraspecific transfer RNAs structure and sequence variations were investigated and simple sequence repeats identified from three S. paniceum mitochondrial genomes were compared showing their diversities as fundamental data to utilize them in various aspects including developing efficient molecular markers in the family, Ptinidae. Phylogenetic analysis of 23 Bostrichoidea mitochondrial genomes presented better species identification based on phylogenetic analyses and the optimal options for constructing phylogenetic trees based on Bostrichoidea mitochondrial genomes. Our results present not only utilization of public NGS raw read sequences but also intraspecific features of S. paniceum mitochondrial genomes and comparative analysis of Bostrichoidea mitochondrial genomes in various aspects.

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“…Pair-wise sequence alignments among complete mitogenome of WBPH including the mitogenome sequenced in this study were conducted by MAFFT v7.450 [56] with the default option. Identifying intraspecific variations, SNPs and INDELs, on the WBPH mitogenomes was conducted using the function, 'Find variations/SNPs,' implemented in the Geneious Prime ® v2020.2.4 (Biomatters Ltd., Auckland, New Zealand), which has been utilized in the previous insect mitochondrial genome studies [37,[57][58][59][60][61][62][63][64]. When the number of INDELs was calculated, continuous INDEL bases were considered one INDEL region.…”

Section: Identification Of Intraspecific Variations Of Wbph Mitogenomesmentioning

confidence: 99%

A New Mitochondrial Genome of Sogatella furcifera (Horváth) (Hemiptera: Delphacidae) and Mitogenome-Wide Investigation on Polymorphisms

Park¹,

Xi²,

Park³

et al. 2021

Insects

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White-backed planthopper (WBPH), Sogatella furcifera (Horváth), is one of the major sap-sucking rice pests in East Asia. We have determined a new complete mitochondrial genome of WBPH collected in the Korean peninsula using NGS technology. Its length and GC percentages are 16,613 bp and 23.8%, respectively. We observed one polymorphic site, a non-synonymous change, in the COX3 gene with confirmation heteroplasmy phenomenon within individuals of WBPH by PCR amplification and Sanger sequencing, the first report in this species. In addition, this heteroplasmy was not observed in wild WBPH populations, suggesting that it may be uncommon in fields. We analyzed single nucleotide polymorphisms, insertion, and deletions, and simple sequence repeats among the three WBPH mitogenomes from Korea and China and found diverse intraspecific variations, which could be potential candidates for developing markers to distinguish geographical populations. Phylogenetic analysis of 32 mitogenomes of Delphacidae including the three WBPH mitogenomes suggested that Delphacinae seems to be monophyletic and Sogatella species including WBPH are clearly formed as one clade. In the future, it is expected that complete mitogenomes of individuals of geographically dispersed WBPH populations will be used for further population genetic studies to understand the migration pathway of WBPH.

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The complete mitochondrial genome of Myzus persicae (Sulzer, 1776; Hemiptera: Aphididae) isolated in Korea

Cited by 8 publications

References 20 publications

Comprehensive analysis of the complete mitochondrial genome ofMelanoplus differentialis(Acrididae: Melanoplinae) captured in Korea

Comprehensive analysis of the complete mitochondrial genome ofMelanoplus differentialis(Acrididae: Melanoplinae) captured in Korea

The investigation of intraspecific characteristics and comparative analyses of the complete mitochondrial genome of Stegobium paniceum (Linnaeus, 1758) (Coleoptera: Ptinidae) assembled from public NGS raw reads of the black truffle, Tuber melanosporum

A New Mitochondrial Genome of Sogatella furcifera (Horváth) (Hemiptera: Delphacidae) and Mitogenome-Wide Investigation on Polymorphisms

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