Extent and divergence of heteroplasmy of the DNA barcoding region in Anapodisma miramae (Orthoptera: Acrididae)

References

• Akaike H. (1974). A new look at the statistical model identification. IEEE Trans Automat Contr 19:716–23
   Web of Science ®Google Scholar
• Arunkumar KP, Metta M, Nagaraju J. (2006). Molecular phylogeny of silkmoths reveals the origin of domesticated silkmoth, Bombyx mori from Chinese Bombyx mandarina and paternal inheritance of Antheraea proylei mitochondrial DNA. Mol Phylogenet Evol 40:419–27
   PubMed Web of Science ®Google Scholar
• Ashley MV, Laipis PJ, Hauswirth WW. (1989). Rapid segregation of heteroplasmic bovine mitochondria. Nucleic Acids Res 17:7325–31
   PubMed Web of Science ®Google Scholar
• Bae YJ. (1998). Insects' life in Korea. I. Apterygota, exopterygota (in part), and aquatic insects. Seoul, Korea: Korean Entomological Institute, Korea University
   Google Scholar
• Bensasson D, Zhang DX, Hartl DL, Hewitt GM. (2001). Mitochondrial pseudogenes: Evolution’s misplaced witnesses. Trends Ecol Evol 16:314–21
   PubMed Web of Science ®Google Scholar
• Birky CW. (2001). The inheritance of genes in mitochondria and chloroplasts: Laws, mechanisms, and models. Annu Rev Genet 35:125–48
   PubMed Web of Science ®Google Scholar
• Chan DC, Schon EA. (2012). Eliminating mitochondrial DNA from sperm. Dev Cell 22:469–70
   PubMed Web of Science ®Google Scholar
• Ciborowski KL, Consuegra S, de Leaniz CG, Beaumont MA, Wang J, Jordan WC. (2007). Rare and fleeting: An example of interspecific recombination in animal mitochondrial DNA. Biol Lett 3:554–7
   PubMed Web of Science ®Google Scholar
• de Stordeur E. (1997). Nonrandom partition of mitochondria in heteroplasmic Drosophila. Heredity 79:615–23
   PubMed Web of Science ®Google Scholar
• Fenn JD, Cameron SL, Whiting MF. (2007). The complete mitochondrial genome sequence of the Mormon cricket (Anabrus simplex: Tettigoniidae: Orthoptera) and an analysis of control region variability. Insect Mol Biol 16:239–52
   PubMed Web of Science ®Google Scholar
• Fenn JD, Song H, Cameron SL, Whiting MF. (2008). A preliminary mitochondrial genome phylogeny of Orthoptera (Insecta) and approaches to maximizing phylogenetic signal found within mitochondrial genome data. Mol Phylogenet Evol 49:59–68
   PubMed Web of Science ®Google Scholar
• Folmer O, Black M, Hoeh W, Lutz R, Vrijenhoek R. (1994). DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Mol Mar Biol Biotechnol 3:294–9
   PubMedGoogle Scholar
• Fontaine KM, Cooley JR, Simon C. (2007). Evidence for paternal leakage in hybrid periodical cicadas (Hemiptera: Magicicada spp.). PLoS One 2:e892
   PubMed Web of Science ®Google Scholar
• Flook PK, Rowell CHF, Gellissen G. (1995). The sequence, organization, and evolution of the Locusta migratoria mitochondrial genome. J Mol Evol 41:928–41
   PubMed Web of Science ®Google Scholar
• Frey JE, Frey B. (2004). Origin of intra-individual variation in PCR-amplified mitochondrial cytochrome oxidase I of Thrips tabaci (Thysanoptera: Thripidae): Mitochondrial heteroplasmy or nuclear integration? Hereditas 140:92–8
   PubMed Web of Science ®Google Scholar
• Gantenbein B, Fet V, Gantenbein-Ritter IA, Balloux F. (2005). Evidence for recombination in scorpion mitochondrial DNA (Scorpiones: Buthidae). Proc R Soc Lond B Biol Sci 272:697–704
   PubMed Web of Science ®Google Scholar
• Gellissen G, Bradfield JY, White BN, Wyatt GR. (1983). Mitochondrial DNA sequences in the nuclear genome of a locust. Nature 301:631–4
   PubMed Web of Science ®Google Scholar
• Gellissen G, Michaelis G. (1987). Gene transfer: Mitochondria to nucleus. Ann N Y Acad Sci 503:391–401
   PubMed Web of Science ®Google Scholar
• Guindon S, Lethiec F, Duroux P, Gascuel O. (2005). PHYML Online: A webserver for fast maximum likelihood-based phylogenetic inference. Nucleic Acids Res 33:557–9
   PubMed Web of Science ®Google Scholar
• Hajibabaei M, Janzen DH, Burns JM, Hallwachs W, Hebert PDN. (2006). DNA barcodes distinguish species of tropical Lepidoptera. Proc Natl Acad Sci USA 103:968–71
   PubMed Web of Science ®Google Scholar
• Hazkani-Covo E, Zeller RM, Martin W. (2010). Molecular poltergeists: Mitochondrial DNA copies (numts) in sequenced nuclear genomes. PLoS Genet 6:e1000834
   PubMed Web of Science ®Google Scholar
• Hebert PDN, Cywinska A, Ball SL, deWaard JR. (2003). Biological identifications through DNA barcodes. Proc R Soc Lond B Biol Sci 270:313–21
   PubMed Web of Science ®Google Scholar
• Hebert PDN, Penton EH, Burns JM, Janzen DH, Hallwachs W. (2004a). Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator. Proc Natl Acad Sci USA 101:14812–17
   PubMed Web of Science ®Google Scholar
• Hebert PDN, Stoeckle MY, Zemlak TS, Francis CM. (2004b). Identification of birds through DNA barcodes. PLoS Biol 2:1657–63
   Web of Science ®Google Scholar
• Heiman M. (1997). Webcutter 2.0. Available at: http://bio.lundberg.gu.se/cutter2/ (Accessed 6 March 2015).
   Google Scholar
• Keller I, Chintauan-Marquier IC, Veltsos P, Nichols RA. (2006). Ribosomal DNA in the grasshopper Podisma pedestris: Escape from concerted evolution. Genetics 174:863–74
   PubMed Web of Science ®Google Scholar
• Kim I, Cha SY, Yoon MH, Hwang JS, Lee SM, Sohn HD, Jin BR. (2005). The complete nucleotide sequence and gene organization of the mitochondrial genome of the oriental mole cricket, Gryllotalpa orientalis (Orthoptera: Gryllotalpidae). Gene 353:155–68
   PubMed Web of Science ®Google Scholar
• Kim MJ, Yoon HJ, Im HH, Jeong HU, Kim MI, Kim SR, Kim I. (2009). Mitochondrial DNA sequence variation of the bumblebee, Bumbus ardens (Hymenoptera: Apidae). J Asia Pac Entomol 12:133–9
   Google Scholar
• Kondo R, Satta Y, Matsuura ET, Ishiwa H, Takahata N, Chigusa SI. (1990). Incomplete maternal transmission of mitochondrial DNA in Drosophila. Genetics 126:657–63
   PubMed Web of Science ®Google Scholar
• Meusel MS, Moritz RFA. (1993). Transfer of paternal mitochondrial DNA during fertilization of honeybee (Apis mellifera L.) eggs. Curr Genet 24:539–43
   PubMed Web of Science ®Google Scholar
• Lanave C, Preparata G, Saccone C, Serio G. (1984). A new method for calculating evolutionary substitution rates. J Mol Evol 20:86–93
   PubMed Web of Science ®Google Scholar
• Lawrence HA, Millar CD, Imber MJ, Crockett DE, Robins JH, Scofield RP, Taylor GA, et al. (2009). Molecular evidence for the identity of the Magenta petrel. Mol Ecol Resour 9:458–61
   PubMed Web of Science ®Google Scholar
• Lee H-S, Lee CE. (1984). Taxonomic revision of the Catantopinae from Korea (Orthoptera: Acrididae) II. Podismini. Korean J Entomol 14:63–80
   Google Scholar
• Liu N, Huang Y. (2010). Complete mitochondrial genome sequence of Acrida cinerea (Acrididae: Orthoptera) and comparative analysis of mitochondrial genomes in Orthoptera. Comp Funct Genomics 2010;2010:319486
   PubMedGoogle Scholar
• Lopez JV, Yuhki N, Masuda R, Modi W, O’Brien SJ. (1994). Numt, a recent transfer and tandem amplification of mitochondrial DNA to the nuclear genome of the domestic cat. J Mol Evol 39:174–90
   PubMed Web of Science ®Google Scholar
• Ma C, Liu C, Yang P, Kang L. (2009). The complete mitochondrial genomes of two band-winged grasshoppers, Gastrimargus marmoratus and Oedaleus asiaticus. BMC Genomics 10:156
   PubMed Web of Science ®Google Scholar
• Magnacca KN, Brown MJF. (2010). Tissue segregation of mitochondrial haplotypes in heteroplasmic Hawaiian bees: Implication for DNA barcoding. Mol Ecol Resour 10:60–8
   PubMed Web of Science ®Google Scholar
• Meier R, Kwong S, Vaidya G, Ng PKL. (2006). DNA barcoding and taxonomy in Diptera: A tale of high intraspecific variability and low identification success. Syst Biol 55:715–28
   PubMed Web of Science ®Google Scholar
• Meyer CP, Paulay G. (2005). DNA barcoding: Error rates based on comprehensive sampling. PLoS Biol 3:2229–38
   Web of Science ®Google Scholar
• Michaels GS, Hauswirth WW, Laipis PJ. (1982). Mitochondrial DNA copy number in bovine oocytes and somatic cells. Dev Biol 94:246–51
   PubMed Web of Science ®Google Scholar
• Milligan BG. (1992). Is organelle DNA strictly maternally inherited? Power analysis of a binomial distribution. Am J Bot 79:1325–8
   Web of Science ®Google Scholar
• Munch K, Boomsma W, Huelsenbeck JP, Willerslev E, Nielsen R. (2008). Statistical assignment of DNA sequences using Bayesian phylogenetics. Syst Biol 57:750–7
   PubMed Web of Science ®Google Scholar
• Perna NT, Kocher TD. (1995). Patterns of nucleotide composition at fourfold degenerate sites of animal mitochondrial genomes. J Mol Evol 41:353–8
   PubMed Web of Science ®Google Scholar
• Posada D, Crandall KA. (1998). MODELTEST: Testing the model of DNA substitution. Bioinformatics 14:817–18
   PubMed Web of Science ®Google Scholar
• Rand DM, Harrison RG. (1989). Molecular population genetics of mtDNA size variation in crickets. Genetics 121:551–69
   PubMed Web of Science ®Google Scholar
• Ratnasingham S, Hebert PDN. (2007). BOLD: The barcode of life data system. Mol Ecol Notes 7:355–64
   PubMed Web of Science ®Google Scholar
• Roehrdanz RL. (1993). An improved primer for PCR amplification of mitochondrial DNA in a variety of insect species. Insect Mol Biol 2:89–91
   PubMedGoogle Scholar
• Rubinoff D, Cameron S, Will K. (2006). A genomic perspective on the shortcomings of mitochondrial DNA for “barcoding” identification. J Here 97:581–94
   PubMed Web of Science ®Google Scholar
• Sherengul W, Kondo R, Matsuura ET. (2006). Analysis of paternal transmission of mitochondrial DNA in Drosophila. Genes Genet Syst 81:399–404
   PubMed Web of Science ®Google Scholar
• Simon C, Frati F, Beckenbach A, Crespi B, Liu H, Flook P. (1994). Evolution, weighting, and phylogenetic utility of mitochondrial gene sequences and a composition of conserved polymerase chain reaction primers. Ann Entomol Soc Am 87:651–701
   Web of Science ®Google Scholar
• Simmons RB, Weller SJ. (2001). Utility and evolution of cytochrome b in insects. Mol Phylogenet Evol 20:196–210
   PubMed Web of Science ®Google Scholar
• Solignac M, Génermont J, Monnerot M, Mounolou J-C. (1984). Genetics of mitochondria in Drosophila: mtDNA inheritance in heteroplasmic strains of D. mauritiana. Mol Gen Genet 197:183–8
   Google Scholar
• Solignac M, Monnerot M, Mounolou J-C. (1983). Mitochondrial DNA heteroplasmy in Drosophila mauritiana. Proc Natl Acad Sci USA 80:6942–6
   PubMed Web of Science ®Google Scholar
• Song H, Buhay JE, Whiting MF, Crandall KA. (2008). Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified. Proc Natl Acad Sci USA 105:13486–91
   PubMed Web of Science ®Google Scholar
• Songram O, Sittipraneed S, Klinbunga S. (2006). Mitochondrial DNA diversity and genetic differentiation of the honeybee (Apis cerana) in Thailand. Biochem Genet 44:256–69
   PubMed Web of Science ®Google Scholar
• Sun H, Zheng Z, Huang Y. (2010). Sequence and phylogenetic analysis of complete mitochondrial DNA genomes of two grasshopper species Gomphocerus rufus (Linnaeus, 1758) and Primnoa arctica (Zhang and Jin, 1985) (Orthoptera: Acridoidea). Mitochondrial DNA 21:115–31
   PubMed Web of Science ®Google Scholar
• Sunnucks P, Hales DF. (1996). Numerous transposed sequences of mitochondrial cytochrome oxidase 1-11 in aphids of the genus Sitobion (Hemiptera: Aphididae). Mol Biol Evol 13:510–24
   PubMed Web of Science ®Google Scholar
• Swofford DL. (2002). PAUP*: Phylogenetic analysis using parsimony (*and other methods). Sunderland, MA: Sinauer Associates
   Google Scholar
• Thompson JD, Higgins DG, Gibson TJ. (1994). CLUSTALW: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–80
   PubMed Web of Science ®Google Scholar
• Ujvari B, Dowton M, Madsen T. (2007). Mitochondrial DNA recombination in a free-ranging Australian lizard. Biol Lett 3:189–92
   PubMed Web of Science ®Google Scholar
• Virgilio M, Backeljau T, Nevado B, Meyer MD. (2010). Comparative performances of DNA barcoding across insect orders. BMC Bioinformatics 11:206
   PubMed Web of Science ®Google Scholar
• Wallace DC. (2005). A mitochondrial paradigm of metabolic and degenerative diseases, aging, and cancer: A dawn for evolutionary medicine. Annu Rev Genet 39:359–407
   PubMed Web of Science ®Google Scholar
• Wallace DC. (2010). Mitochondrial DNA mutations in disease and aging. Environ Mol Mutagen 51:440–50
   PubMed Web of Science ®Google Scholar
• 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 40:6333–49
   PubMed Web of Science ®Google Scholar
• White DJ, Wolfe JN, Pierson M, Gemmell NJ. (2008). Revealing the hidden complexities of mtDNA inheritance. Mol Ecol 17:4925–42
   PubMed Web of Science ®Google Scholar
• Zhou ZJ, Huang Y, Shi FM, Ye HY. (2009). The complete mitochondrial genome of Deracantha onos (Orthoptera: Bradyporidae). Mol Biol Rep 36:7–12
   PubMed Web of Science ®Google Scholar
• Zhao L, Zheng ZM, Huang Y, Sun HM. (2010). A comparative analysis of mitochondrial genomes in Orthoptera (Arthropoda: Insecta) and genome descriptions of three grasshopper species. Zool Sci 27:662–72
   PubMed Web of Science ®Google Scholar
• Zouros E, Ball AO, Saavedra C, Freeman KR. (1994). A new type of mitochondrial DNA inheritance in the blue mussel Mytilus. Proc Natl Acad Sci USA 91:7463–7
   PubMed Web of Science ®Google Scholar