The complete mitochondrial genome of the broad-winged damselfly Mnais costalis Selys (Odonata: Calopterygidae) obtained by next-generation sequencing

References

• Altschul, S. F., Gish, W., Miller, W., Myers, E. W., & Lipman, D. J. (1990). Basic local alignment search tool. Journal of Molecular Biology, 215, 403–410. doi: 10.1006/jmbi.1990.9999
   PubMed Web of Science ®Google Scholar
• Ballare, E., & Ware, J. L. (2011). Dragons fly, biologists classify: an overview of molecular odonate studies, and our evolutionary understanding of dragonfly and damselfly (Insecta: Odonata) behavior. International Journal of Odonatology, 14, 137–147. doi: 10.1080/13887890.2011.579538
   Web of Science ®Google Scholar
• Cameron, S. L. (2014). Insect mitochondrial genomics: Implications for evolution and phylogeny. Annual Review of Entomology, 59, 95–117. doi: 10.1146/annurev-ento-011613-162007
   PubMed Web of Science ®Google Scholar
• Castresana, J. (2000). Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Molecular Biology and Evolution, 17, 540–552. doi: 10.1093/oxfordjournals.molbev.a026334
   PubMed Web of Science ®Google Scholar
• Chen, M. Y., Chaw, S. M., Wang, J. F., Villanueva, R. J. T., Nuñeza, O. M., & Lin, C. P. (2015). Mitochondrial genome of a flashwing demoiselle Vestalis melania from the Philippine Archipelago. Mitochondrial DNA, 26, 720–721. doi: 10.3109/19401736.2013.845757
   PubMed Web of Science ®Google Scholar
• Córdoba-Aguilar, A. (Ed.). (2008). Dragonflies and damselflies. Model organisms for ecological and evolutionary research. Oxford: Oxford University Press.
   Google Scholar
• Dijkstra, K.-D. B., Bechly, G., Bybee, S. M., Dow, R. A., Dumont, H. J., Fleck, G., … Ware, J. (2013). The classification and diversity of dragonflies and damselflies (Odonata). In Zhang, Z.-Q. (Ed.). Animal biodiversity: An outline of higher-level classification and survey of taxonomic richness. Zootaxa, 3730, 36–45. doi: 10.11646/zootaxa.3703.1.9
   Google Scholar
• Edgar, R. C. (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research, 32, 1792–1797. doi: 10.1093/nar/gkh340
   PubMed Web of Science ®Google Scholar
• Ferreira, S., Lorenzo-Carballa, M. O., Torres-Cambas, Y., Cordero-Rivera, A., Thompson, D. J., & Watts, P. C. (2014). New EPIC nuclear DNA sequence markers to improve the resolution of phylogeographic studies of coenagrionids and other odonates. International Journal of Odonatology, 17, 135–147. doi: 10.1080/13887890.2014.950698
   Web of Science ®Google Scholar
• Hayashi, F., Dobata, S., & Futahasi, R. (2005). Disturbed population genetics: suspected introgressive hybridization between two Mnais damselfly species (Odonata). Zoological Science, 22, 869–881. doi: 10.2108/zsj.22.869
   PubMed Web of Science ®Google Scholar
• Katoh, K., & Standley, D. M. (2013). MAFFT multiple sequence alignment software Version 7: Improvements in Performance and Usability. Molecular Biology and Evolution, 30, 772–780. doi: 10.1093/molbev/mst010
   PubMed Web of Science ®Google Scholar
• Kumar, C. S., Nair, R. R., Sivaramarkrishnan, K. G., Ganesh, D., Janarthanan, S., Arunachlam, M., & Sivarubam, T. (2012). Influence of certain forces of evolution of synonymous codon usage bias in certain species of three basal orders of aquatic insects. Mitochondrial DNA, 23, 447–460. doi: 10.3109/19401736.2012.710203
   PubMed Web of Science ®Google Scholar
• Laslett, D., & Canbäck B. (2008). ARWEN, a program to detect tRNA genes in metazoan mitochondrial nucleotide sequences. Bioinformatics, 24, 172–175. doi: 10.1093/bioinformatics/btm573
   PubMed Web of Science ®Google Scholar
• Lee, E. M., Hong, M. Y., Kim, M. I., Kim, M. J., Park, H. C., Kim, K. Y., … Kim, I. (2009). The complete mitogenome sequences of the palaeopteran insects Ephemera orientalis (Ephemeroptera: Ephemeridae) and Davidius lunatus (Odonata: Gomphidae). Genome, 52, 810–817. doi: 10.1139/g09-055
   PubMed Web of Science ®Google Scholar
• Lin, C. P., Chen, M. Y., & Huang, J. P. (2010). The complete mitochondrial genome and phylogenomics of a damselfly, Euphaea formosa supports a basal Odonata within the Pterygota. Gene, 468, 20–29. doi: 10.1016/j.gene.2010.08.001
   PubMed Web of Science ®Google Scholar
• Lorenzo-Carballa, M. O., Thompson, D. J., Cordero-Rivera, A., & Watts, P. C. (2014). Next generation sequencing yields the complete mitochondrial genome of the scarce blue-tailed damselfly, Ischnura pumilio. Mitochondrial DNA, 25, 247–248. doi: 10.3109/19401736.2013.796518
   PubMed Web of Science ®Google Scholar
• Plaistow, S., & Tsubaki, Y. (2000). A selective trade-off for territoriality and non-territoriality in the polymorphic damselfly Mnais costalis. Proceedings of the Royal Society of London Series B – Biological Sciences, 267, 969–975. doi: 10.1098/rspb.2000.1098
   PubMed Web of Science ®Google Scholar
• Simon, S., & Hadrys, H. (2013). A comparative analysis of complete mitochondrial genomes among Hexapoda. Molecular Phylogenetics and Evolution, 69, 393–403. doi: 10.1016/J.Ympev.2013.03.033
   PubMed Web of Science ®Google Scholar
• Smith, C., Heyne, S., Richter, A. S., Will, S., & Backofen, R. (2010). Freiburg RNA tools: a web server integrating IntaRNA, ExpaRNA and LocARNA. Nucleic Acids Research, 38(Suppl.), W373–377. doi: 10.1093/nar/gkq316
   Google Scholar
• Stamatakis, A. (2006). RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics, 22, 2688–2690. doi: 10.1093/bioinformatics/btl446
   PubMed Web of Science ®Google Scholar
• Stamatakis, A., Hoover, P., & Rougemont, J. (2008). A rapid bootstrap algorithm for the RAxML Web servers. Systematic Biology, 57, 758–771. doi: 10.1080/10635150802429642
   PubMed Web of Science ®Google Scholar
• Stewart, J. B., & Beckenbach, A. T. (2006). Insect mitochondrial genomics 2: the complete mitochondrial genome sequence of a giant stonefly, Pteronarcys princeps, asymmetric directional mutation bias, and conserved plecopteran A+T-region elements. Genome, 49, 815–824. doi: 10.1139/g06-037
   PubMed Web of Science ®Google Scholar
• Talavera, G., & Castresana, J. (2007). Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Systematic Biology, 56, 564–577. doi: 10.1080/10635150701472164
   PubMed Web of Science ®Google Scholar
• Tang, M., Tan, M., Meng, G., Yang, S., Su, X., Liu, S., … Zhou, X. (2014). Multiplex sequencing of pooled mitochondrial genomes – a crucial step toward biodiversity analysis using mito-metagenomics. Nucleic Acids Research, 42, e166. doi: 10.1093/nar/gku917
   Web of Science ®Google Scholar
• Tsubaki, Y., Hooper, R., & Siva-Jothy, M. (1997). Differences in adult and reproductive lifespan in the two male forms of Mnais pruinosa costalis Selys (Odonata : Calopterygidae). Researches on Population Ecology, 39, 149–155. doi: 10.1007/BF02765260
   Google Scholar
• Tsubaki, Y., & Okuyama, H. (2016). Adaptive loss of color polymorphism and character displacement in sympatric Mnais damselflies. Evolutionary Ecology, 30, 811–824. doi: 10.1007/s10682-015-9778-3.
   Google Scholar
• Wang, J. F., Chen, M. Y., Chaw, S. M., Morii, Y., Yoshimura, M., Sota, T., & Lin, C. P. (2015). Complete mitochondrial genome of an enigmatic dragonfly, Epiophlebia superstes (Odonata, Epiophlebidae). Mitochondrial DNA, 26, 718–719. doi: 10.3109/19401736.2013.845756
   PubMed Web of Science ®Google Scholar
• Will, S., Joshi, T., Hofacker, I. L., Stadler, P. F., & Backofen, R. (2012). LocARNA-P: Accurate boundary prediction and improved detection of structural RNAs. RNA, 18, 900–914. doi: 10.1261/rna.029041.111
   PubMed Web of Science ®Google Scholar
• Will, S., Reiche, K., Hofacker, I. L., Stadler, P. F., & Backofen, R. (2007). Inferring non-coding RNA families and classes by means of genome-scale structure-based clustering. PloS Computational Biology, 3(4), e65. doi: 10.1371/journal.pcbi.0030065
   PubMed Web of Science ®Google Scholar
• Yamauchi, M. M., Miya, M. U., & Nishida, M. (2004). Use of a PCR-based approach for sequencing whole mitochondrial genomes insects: two examples (cockroach and dragonfly) based on the method developed for decapod crustaceans. Insect Molecular Biology, 13, 435–442. doi: 10.1111/j.0962-1075.2004.00505.x
   PubMed Web of Science ®Google Scholar
• Yu, P., Cheng, X., Ma, Y., Yu, D., & Zhang, J. (2016). The complete mitochondrial genome of Brachythemis contaminata (Odonata: Libellulidae). Mitochondrial DNA A, DNA Mapp. Seq. Anal., 27(3), 2272–2273. doi: 10.3109/19401736.2014.984176
   PubMedGoogle Scholar
• Zhang, J., Zhou, C., Gai, Y., Song, D., & Zhou, K. (2008). The complete mitochondrial genome of Parafronurus youi (Insecta: Ephemeroptera) and phylogenetic position of the Ephemeroptera. Gene, 424, 18–24 doi: 10.1G016/j.gene.2008.07.037.
   PubMed Web of Science ®Google Scholar