International Journal of Industrial Entomology and Biomaterials

Korean Society of Sericultural Science (한국잠사학회)
권호 표지
DOI QR코드

DOI QR Code

Additional mitochondrial DNA sequences from the dragonfly, Nannophya pygmaea (Odonata: Libellulidae), which is endangered in South Korea

  • Wang, Ah Rha (College of Agriculture & Life Sciences Chonnam National University) ;
  • Kim, Min Jee (College of Agriculture & Life Sciences Chonnam National University) ;
  • Kim, Sung Soo (Research Institute for East Asian Environment and Biology) ;
  • Kim, Iksoo (College of Agriculture & Life Sciences Chonnam National University)
  • Received : 2017.07.19
  • Accepted : 2017.07.26
  • Published : 2017.09.30
Download PDF
⟨ Previous Next ⟩

Abstract

The tiny dragonfly, Nannophya pygmaea (Odonata: Libellulidae), is an endangered insect in South Korea. Previously, a partial mitochondrial DNA sequence that corresponded to a DNA barcoding region has been used to infer genetic diversity and gene flow. In this study, we additionally sequenced the barcoding region from N. pygmaea that had been collected from three previously sampled populations (40 individuals) and these sequences were combined with the preexisting data. We also selected and sequenced an additional mitochondrial gene (ND5) to find further variable gene regions in the mitochondrial genome. DNA barcoding sequences of 108 individuals from five South Korean localities showed that genetic diversity was highest in Gangjin, Jeollanam-do Province. Muuido, which was previously occupied by a single haplotype, was also found to have an identical haplotype, which confirmed the low genetic diversity on this islet. Gene flow among populations is highly limited, and no clear distance- or region-based geographic partitioning was observed. Phylogenetic relationships among haplotypes showed that there were no discernable haplotypes in South Korea. ND5 provided slightly more haplotypes compared to the barcoding region in 40 individuals (14 vs. 10 haplotypes in the COI gene). It also had a slightly higher within-locality diversity estimate, which suggested that ND5 had potential as mitochondrial DNA-based marker for population genetic analysis.

Keywords

References

  1. Akaike H (1974) A new look at the statistical model identification. IEEE Trans Autom Contr 19, 716-723. https://doi.org/10.1109/TAC.1974.1100705
  2. Excoffier L, Lischer HL (2010) Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol 10, 564-567. https://doi.org/10.1111/j.1755-0998.2010.02847.x
  3. Excoffier L, Smouse PE, Quattro JM (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131, 479-491.
  4. Ishida S, Ishida K, Kozinia K, Sukimura M (1988) Illustrated guide for identification of the Japanese Odonata. Tokai Univ Press, Tokyo.
  5. Jeong SY, Kim MJ, Wang AR, Kim S-S, An J, Kim I (2017) Complete mitochondrial genome sequence of the tiny dragonfly, Nannophya pygmaea (Odonata: Libellulidae). Cons Genetic Resour In Press.
  6. Karube H (2009) Nannophya pygmaea. The IUCN Red List of Threatened Species 2009: e.T167187A6312660.
  7. Kim KY, Jang SK, Park DW, Hong MY, Oh KH, Kim KY et al (2007) Mitochondrial DNA sequence variation of the tiny dragonfly, Nannophya pygmaea (Odonata: Libellulidae). Int J Indust Entomol 15, 47-58.
  8. Kimura DK (1980) Likelihood methods for the von Bertalanffy growth curve. Fis Bull 77, 765-776.
  9. Korean Ministry of Environment (2006) Environmental statistics yearbook. Korean Ministry of Environment, Seoul.
  10. Low VL, Sofian-Azirun M, Norma-Rashid Y (2016) Playing hide-andseek with the tiny dragonfly: DNA barcoding discriminates multiple lineages of Nannophya pygmaea in Asia. J Insect Conserv 20, 339. https://doi.org/10.1007/s10841-016-9860-3
  11. Miller MA, Pfeiffer W, Schwartz T (2010) Creating the CIPRES Science Gateway for inference of large phylogenetic trees. In: Proceedings of the Gateway Computing Environments Workshop (GCE). New Orleans, LA, 1-8.
  12. Nei M (1987). Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89, 583-590.
  13. Posada D, Crandall KA (1998). Modeltest: testing the model of DNA substitution. Bioinformatics 14, 817-818. https://doi.org/10.1093/bioinformatics/14.9.817
  14. Sievers F, Wilm A, Dineen D, Gibson TJ, Karplus K, Li W, et al (2011) Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Mol Syst Biol 7, 539.
  15. Stamatakis A (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22, 2688-2690. https://doi.org/10.1093/bioinformatics/btl446
  16. Swofford DS (1999) PAUP* 4.0: phylogenetic analysis using parsimony (*and other methods). Version 4b2. Sinauer Associates, Sunderland, Mass.
  17. Wan X, Kim MJ, Kim I (2013) Description of new mitochondrial genomes (Spodoptera litura, Noctuoidea and Cnaphalocrocis medinalis, Pyraloidea) and phylogenetic reconstruction of Lepidoptera with the comment on optimization schemes. Mol Biol Rep 40, 6333-6349. https://doi.org/10.1007/s11033-013-2748-3
  18. Won BH, Kim SS, Kim W, Kim IS, Kim JH, Kim JI et al (2009) Endangered wild species in Korea. Kyo-Hak Publishing Co, Seoul.