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. 2019 Dec 12;5(1):254–256. doi: 10.1080/23802359.2019.1699472

The complete mitochondrial genome of Greenidea ficicola (Hemiptera: Aphididae: Greenideinae), a pest of Ficus

Qian Liu 1, Hui Zhang 1, Jun Deng 1, Xiaolan Lin 1, Xiaolei Huang 1,✉
PMCID: PMC7748430  PMID: 33366510

Abstract

In this study, the complete mitochondrial genome of the pest aphid Greenidea ficicola was determined. The mitogenome was 17,361 bp in length, containing 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes, 1 long control region located between srRNA and tRNAIle, and a repeat region located between tRNAGlu and tRNAPhe. Thirteen protein-coding genes have typical ATN start codon and TAA termination codon. All tRNAs were predicted to contain typical clover-leaf secondary structures except tRNASer(gct). The length of lrRNA and srRNA are 1270 bp and 773 bp, respectively. Phylogenetic analysis shows that Greenideinae speices form a highly supported clade.

Keywords: Mitogenome, repeat region, control region, phylogeny

Greenidea ficicola (Greenideinae: Greenideini) mainly feeds on Ficus plants, such as Ficus microcarpa, F. altissima, F. benjamina, on the undersides of young leaves and on the shoots. It sometimes concentrated on plants of other families, such as Litchi chinensis, Psidium guajava, Glycosmis pentaphylla. Greenidea ficicola is widely distributed in Asia (Blackman and Eastop 2000) and has been introduced to many other areas, such as Tunisia, Malta, Italy, and Hawaii (USA). To date, in Greenideinae, two complete mitochondrial genomes of Greenidea psidii and Cervaphis quercus have been reported (Wang et al. 2014; Chen et al. 2019).

Samples of G. ficicola were collected in February 2017 from Guangzhou City, Guangdong province, China. Voucher specimen (HL20170210-1) was deposited in the Insect Systematics and Diversity Lab at Fujian Agriculture and Forestry University, Fuzhou, China. The mitogenome was sequenced on an Illumina platform and assembled using NovoPlasty v. 2.7.1 (Dierckxsens et al. 2017). Then, the MITOS Webserver (Bernt et al. 2013) was used to annotate the mitogenome.

The total length of G. ficicola mitogenome is 17,361 bp (GenBank accession number: MN704283), longer than majority of published aphid mitogenomes. The overall base composition was A (46.9%), T (38.8%), C (9.0%), and G (5.3%), with a strong bias toward A + T (85.7%). The mitogenome contains 13 protein-coding genes (PCGs), 22 tRNA genes (tRNAs), 2 rRNA genes (rRNAs), and 1 control region. Gene order was conserved and it was identical to the inferred ancestral arrangement of insects (Clary and Wolstenholme 1985) and to that of G. psidii (Chen et al. 2019). Fourteen tRNAs and nine PCGs are transcribed on the forward strand (J-strand), the remaining genes being oriented on the reverse strand (N-strand). All PCGs initiate with typical ATN as the start codon (six ATA, five ATT, and two ATG) and terminate with conventional stop codon TAA. The mean length of tRNAs is 67 bp, ranging from 62 bp to 73 bp. All tRNAs exhibit the typical clover-leaf like secondary structures except tRNASer(gct). The length of lrRNA and srRNA are 1270 bp and 773 bp, with 85.2% and 84.6% A + T content, respectively. The control region (1598 bp) with a high A + T content (92.6%) is longer than that of most other aphid species, it is located between srRNA and tRNAIle and contains a long tandem repeats (861 bp). In addition, a long repeat region (950 bp) between tRNAGlu and tRNAPhe exists in the G. ficicola mitogenome, which was thought to be highly species-specific and unique to some Hemiptera lineages (Wang et al. 2013, 2015).

Sequences of all 13 PCGs were extracted from the mitochondrial genomes of G. ficicola and 33 other aphids, including one outgroup species Adelges laricis. A maximum-likelihood phylogenetic tree (Figure 1) was reconstructed using IQ-TREE (Nguyen et al. 2015), which showed that G. ficicola and other two Greenideinae species clustered together with strong support, and other subfamilies also formed separate clades except Eriosomatinae. Although with a low support, our phylogenetic tree indicated that two Erisomatini species grouped with Greenideinae, which is also reported in other studies (Nováková et al. 2013; Lee et al. 2019).

Figure 1.

Figure 1.

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The maximum-likelihood tree of G. ficicola and 33 other aphids based on sequences of 13 protein-coding genes. Numbers above the branches indicate the bootstrap support values, and values lower than 50 are not shown.

Funding Statement

The work was supported by National Natural Science Foundation of China [Grant number: 31970446] and National Key R&D Program of China [Grant number: 2016YFE0203100].

Disclosure statement

No potential conflict of interest was reported by the authors.

References

  1. Bernt M, Donath A, Jühling F, Externbrink F, Florentz C, Fritzsch G, Pütz J, Middendorf M, Stadler PF. 2013. MITOS: improved de novo metazoan mitochondrial genome annotation. Mol Phylogenet Evol. 69(2):313–319. [DOI] [PubMed] [Google Scholar]
  2. Blackman RL, Eastop VF. 2000. Aphids on the world’s crops: an identification and information guide. 2nd ed. New York (NY): Jhon Wiley & Sons Limited. [Google Scholar]
  3. Chen J, Wang Y, Qin M, Jiang LY, Qiao GX. 2019. The mitochondrial genome of Greenidea psidii van der Goot (Hemiptera: Aphididae: Greenideinae) and comparisons with other Aphididae aphids. Int J Biol Macromol. 122:824–832. [DOI] [PubMed] [Google Scholar]
  4. Clary DO, Wolstenholme DR. 1985. The mitochondrial DNA molecule of Drosophila yakuba: nucleotide sequence, gene organization, and genetic code. J Mol Evol. 22(3):252–271. [DOI] [PubMed] [Google Scholar]
  5. Dierckxsens N, Mardulyn P, Smits G. 2017. NOVOPlasty: de novo assembly of organelle genomes from whole genome data. Nucleic Acids Res. 45(4):e18. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Lee J, Park J, Lee H, Park J, Lee W. 2019. The complete mitochondrial genome of Paracolopha morrisoni (Baker, 1919) (Hemiptera: Aphididae). Mitochondrial DNA B. 4(2):3037–3039. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Nguyen LT, Schmidt HA, Von Haeseler A, Minh BQ. 2015. IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Mol Biol Evol. 32(1):268–274. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Nováková E, Hypša V, Klein J, Foottit RG, von Dohlen CD, Moran NA. 2013. Reconstructing the phylogeny of aphids (Hemiptera: Aphididae) using DNA of the obligate symbiont Buchnera aphidicola. Mol Phylogenet Evol. 68(1):42–54. [DOI] [PubMed] [Google Scholar]
  9. Wang Y, Chen J, Jiang LY, Qiao GX. 2015. Hemipteran mitochondrial genomes: features, structures and implications for phylogeny. IJMS. 16(12):12382–12404. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Wang Y, Huang XL, Qiao GX. 2013. Comparative analysis of mitochondrial genomes of five aphid species (Hemiptera: Aphididae) and phylogenetic implications. PLoS One. 8(10):e77511. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Wang Y, Huang XL, Qiao GX. 2014. The complete mitochondrial genome of Cervaphis quercus (Insecta: Hemiptera: Aphididae: Greenideinae). Insect Sci. 21(3):278–290. [DOI] [PubMed] [Google Scholar]

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