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

Volumn 21, Issue 3-4, 2010, Pages 115-131

  Sun, Huimin ^a   Zheng, Zhemin ^a   Huang, Yuan ^a  

^a SHAANXI NORMAL UNIVERSITY   (China)

Author keywords

Acridoidea; Complete mitochondrial DNA; Orthoptera; Phylogenetic analysis

Indexed keywords

MITOCHONDRIAL DNA; RIBOSOME RNA; TRANSFER RNA;

ARTICLE; GENE MAPPING; GENE REARRANGEMENT; GOMPHOCERUS RUFUS; GRASSHOPPER; MITOCHONDRIAL GENE; MITOCHONDRIAL GENOME; NONHUMAN; NUCLEOTIDE SEQUENCE; ORTHOPTERA; PHYLOGENY; PRIMNOA ARCTICA; PRIORITY JOURNAL; RNA STRUCTURE; SEQUENCE ANALYSIS; TAXONOMY;

ANIMALS; DNA, MITOCHONDRIAL; GENOME, INSECT; GRASSHOPPERS; MOLECULAR SEQUENCE DATA; POLYMERASE CHAIN REACTION; SPECIES SPECIFICITY;

ACRIDIDAE; ACRIDOIDEA; CAELIFERA; CATANTOPINAE; CHORTHIPPUS; ENSIFERA (INSECTS); GOMPHOCERINAE; GOMPHOCERIPPUS RUFUS; METAZOA; OEDIPODINAE; ORTHOPTERA; PHLAEOBA; PYRGOMORPHOIDEA;

EID: 77956091525     PISSN: 19401736     EISSN: 19401744     Source Type: Journal    
DOI: 10.3109/19401736.2010.482585     Document Type: Article

References (63)

1. Behura SK. 2006. Molecular marker systems in insects: Current trends and future avenues. Mol Ecol 15:3087-3113.
2. Burland TG. 2000. DNASTAR's lasergene sequence analysis software. Methods Mol Biol 132:71-91.
3. Cameron SL, Whiting MF. 2007. Mitochondrial genomic comparisons of the subterranean termites from the genus Reticulitermes (Insecta: Isoptera: Rhinotermitidae). Genome 50: 188-202.
4. Cameron SL, Barker SC, Whiting MF. 2006. Mitochondrial genomics and the new insect order Mantophasmatodea. Mol Phylogenet Evol 38:274-279.
5. Castro LR, Dowton M. 2007. Mitochondrial genomes in the Hymenoptera and their utility as phylogenetic markers. Syst Entomol 32:60-69.
6. Ding FM, Shi HW, Huang Y. 2007. Complete mitochondrial genome and secondary structures of lrRNA and srRNA of Atractomorpha sinensis (Orthoptera, Pyrgomorphidae). Zool Res 28:580-588.
7. Eades DC, Otte D. 2010. Orthoptera species file 2.0/3.5 [accessed 26 January 2010]. Available from: http://orthoptera. speciesfile.org
8. 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 16:239-252.
9. 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.
10. Flook PK, Rowell CHF. 1997a. The phylogeny of the Caelifera (Insecta, Orthoptera) as deduced from mtrRNA gene sequences. Mol Phylogenet Evol 8:89-103.
11. Flook PK, Rowell CHF. 1997b. The effectiveness of mitochondrial rRNA gene sequences for the reconstruction of the phylogeny of an insect order (Orthoptera). Mol Phylogenet Evol 8: 177-192.
12. Flook PK, Rowell CHF. 1998. Inferences of orthopteroid phylogeny and molecular evolution from small subunit nuclear ribosomal DNA sequences. Insect Mol Biol 7:163-178.
13. Flook PK, Rowell CHF, Gellissen G. 1995a. The sequence, organization, and evolution of the Locusta migratoria mitochondrial genome. J Mol Evol 41:928-941.
14. Flook PK, Rowell H, Gellissen G. 1995b. Homoplastic rearrangements of insect mitochondrial transfer-RNA genes. Naturwissenschaften 82:336-337.
15. Flook PK, Klee IS, Rowell CHF. 1999. Combined molecular phylogenetic analysis of the Orthoptera (Arthropoda, Insecta) and implications for their higher systematics. Syst Biol 48: 233-253.
16. Flook PK, Klee IS, Rowell CHF. 2000. Molecular phylogenetic analysis of the Pneumoroidea (Orthoptera, Caelifera): Molecular data resolve morphological character conflicts in the basal Acridomorpha. Mol Phylogenet Evol 15: 345-354.
17. Gillespie JJ, Johnston JS, Cannone JJ, Gutell RR. 2006. Characteristics of the nuclear (18S, 5.8S, 28S and 5S) and mitochondrial (12S and 16S) rRNA genes of Apis mellifera (Insecta: Hymenoptera): Structure, organization, and retrotransposable elements. Insect Mol Biol 15:657-686.
18. Hu J. 2006. The complete mitochondrial genome of Haplotropis brunneriana and Arthropoda phylogenetic analysis based on mitochondrial gene rearrangements. Master's degree paper, Shaanxi Normal University.
19. Jost MC, Shaw KL. 2006. Phylogeny of Ensifera (Hexapoda: Orthoptera) using three ribosomal loci, with implications for the evolution of acoustic communication. Mol Phylogenet Evol 38:510-530.
20. 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: 155-168.
21. Kumar S, Nei M, Dudley J, Tamura K. 2008. MEGA: A Biologistcentric software for evolutionary analysis of DNA and protein sequences. Brief Bioinform 9:299-306.
22. Liu JP. 1991. Preliminary research on the relationships between morphologic construct and phylogeny in grasshoppers. Articles Phylogenet Zool 1:89-94.
23. Liu Y, Huang Y. 2008. Sequencing and analysis of complete mitochondrial genome of Chorthippus chinensis Tarb. Chin J Biochem Mol Biol 24:329-335.
24. Liu N, Hu J, Huang Y. 2006. Amplification of grasshoppers complete mitochondrial genomes using long PCR. Chin J Zool 41:61-65.
25. Lowe TM, Eddy SR. 1997. tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res 25:955-964.
26. Ma C, Liu C, Yang P, Kang L. 2009. The complete mitochondrial genomes of two band-winged grasshoppers, Gastrimargus marmoratus and Oedaleus asiaticus. BMC Genom 10:156.
27. Martin WF, Müller M. 1998. The hydrogen hypothesis for the first eukaryote. Nature 392:37-41.
28. Nardi F, Carapelli A, Fanciulli PP, Dallai R, Frati F. 2001. The complete mitochondrial DNA sequence of the basal bexapod Tetrodontophora bielanensis: Evidence for heteroplasmy and tRNA translocations. Mol Biol Evol 18:1293-1304.
29. Posada D. 2006. ModelTest Server: A web-based tool for the statistical selection of models of nucleotide substitution online. Nucleic Acids Res 34:W700-W703.
30. Posada D, Crandall KA. 1998. Modeltest: Testing the model of DNA substitution. Bioinformatics 14:817-818.
31. Rodríguez FJ, Oliver JL, Marín A, Medina JR. 1990. The general stochastic model of nucleotide substitution. J Theor Biol 142: 485-501.
32. Rondan Dueñ as JC, Gardenal CN, Llinás GA, Panzetta-Dutari GM. 2006. Structural organization of the mitochondrial DNA control region in Aedes aegypti. Genome 49:931-937.
33. Ronquist F, Huelsenbeck JP. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574.
34. Saito S, Tamura K, Aotsuka T. 2005. Replication origin of mitochondrial DNA in insects. Genetics 171:1695-1705.
35. Secq OM-P, Stam WT, Olsen JL. 2006. Complete mitochondrial genomes of the three brown algae (Heterokonta: Phaeophyceae) Dictyota dichotoma, Fucus vesiculosus and Desmarestia viridis. Curr Genet 49:47-58.
36. Shadel GC, Clayton DA. 1997. Mitochondrial DNA maintenance in vertebrates. Annu Rev Biochem 66:409-435.
37. Shi HW, Ding FM, Huang Y. 2008. Complete sequencing and analysis of mtDNA in Phlaeoba albonema Zheng. Chin J Biochem Mol Biol 24:604-611.
38. Simon C, Frait F, Bekenbach A, Crespi B, Liu H, Flook P. 1994. Evolution, weighting, and phylogenetic unity of mitochondrial gene sequences and a compilation of conserved polymerase chain-reaction primers. Ann Entomol Soc Am 87: 651-701.
39. Simon C, Buckley TR, Frati F, Stewart JB, Beckenbach AT. 2006. Incorporating molecular evolution into phylogenetic analysis, and a new compilation of conserved polymerase chain reaction primers for animal mitochondrial DNA. Annu Rev Ecol Evol Syst 37:545-579.
40. Sprinzl M, Horn C, Brown M, Ioudovitch A, Steinberg S. 1998. Compilation of tRNA sequences and sequences of tRNA genes. Nucl Acids Res 26:148-153.
41. Staden R, Beal KF, Bonfield JK. 2000. The Staden package, 1998. Methods Mol Biol 132:115-130.
42. Stewart JB, Beckenbach AT. 2003. Phylogenetic and genomic analysis of the complete mitochondrial DNA sequence of the spotted asparagus beetle Crioceris duodecimpunctata. Mol Phylogenet Evol 26:513-526.
43. Swofford DL. 2001. PAUP*: Phylogenetic analysis using parsimony (and other methods) 4.0 Beta. Sunderland, MA: Sinauer Associates.
44. Tamura K, Dudley J, Nei M, Kumar S. 2007. MEGA4: Molecular Evolutionary Genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596-1599.
45. Terry MD, Whiting MF. 2005. Mantophasmatodea and phylogeny of the lower neopterous insects. Cladistics 21: 240-257.
46. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The CLUSTAL-X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl Acids Res 25:4876-4882.
47. Vellai T, Takacs K, Vida G. 1998. A new aspect to the origin and evolution of eukaryotes. J Mol Evol 46:499-507.
48. Wang N, Feng X, Jiang G, Fang N, Xuan W. 2008. Molecular phylogenetic analysis of five subfamilies of the Acrididae (Orthoptera: Acridoidea) based on the mitochondrial cytochrome b and cytochrome c oxidase subunit I gene sequences. Acta Entomol Sin 51:1187-1195.
49. Xi GS. 1996. Research on animal sperma. Xi'an, China: Shaanxi Normal University Press.
50. Xia KL. 1958. Classification summary of grasshoppers in China. Beijing, China: Science Press.
51. Xiao LL. 2007. Sequencing and analysis of the complete mitochondrial genomes of Ceracris nigricornis nigricornis, Yunnanites coriacea and Locusta migratoria migratoria, Degree paper, Shaanxi Normal University, Xi'an, China
52. Yamauchi MM, Miya MU, Nishida M. 2004. Use of a PCR-based approach for sequencing whole mitochondrial genomes of insects: Two examples (cockroach and dragonfly) based on the method developed for decapod crustaceans. Insect Mol Biol 13: 435-442.
53. Yang Z. 1994. Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods. J Mol Evol 39:306-314.
54. Ye W, Dang JP, Xie LD, Huang Y. 2008. Complete mitochondrial genome of Teleogryllus emma (Orthoptera: Gryllidae) with a new gene order in Orthoptera. Zool Res 29:236-244.
55. Yin XC. 1982. The studies on classification system of Acridoidea in China. Res Articles Upland Biol 1:69-99.
56. Yin H, Zhang DC, Bi ZL, Yin Z, Liu Y, Yin XC. 2003. Molecular phylogeny of some species of the Acridoidea based on 16S rDNA. Acta Genet Sin 30:766-772.
57. Zhang FL, Jin XB. 1985. A preliminary survey of grasshoppers from Da Xinganling, Northeast China (Orthoptera: Acridoidea). Contributions from Shanghai Institute of Entomology 5:207-219.
58. Zhang DX, Hewitt GM. 1997. Insect mitochondrial control region: A review of its structure, evolution and usefulness in evolutionary studies. Biochem Syst Ecol 25:99-120.
59. Zhang CY, Huang Y. 2008. Complete mitochondrial genome of Oxya chinensis (Orthoptera, Acridoidea). Acta Biochim Biophys Sin 40:7-18.
60. Zheng ZM. 1993. Acritaxonom. Xi'an, China: Shaanxi Normal University Press.
61. Zhou ZJ, Huang Y, Shi FM. 2007. The mitochondrial genome of Ruspolia dubia (Orthoptera: Conocephalidae) contains a short A\+T-rich region of 70 bp in length. Genome 50: 855-866.
62. Zhou ZJ, Shi FM, Huang Y. 2008. The complete mitogenome of the Chinese bush cricket, Gampsocleis gratiosa (Orthoptera: Tettigonioidea). J Genet Genom 35:341-348.
63. Zhou ZJ, Huang Y, Shi FM, Ye HY. 2009. The complete mitochondrial genome of Dercantha onos (Orthoptera: Bradyporidae). Mol Biol Rep 36:7-12.