A comparative analysis of mitochondrial genomes in orthoptera (Arthropoda: Lnsecta) and genome descriptions of three grasshopper species

Zoological Science

Volumn 27, Issue 8, 2010, Pages 662-672

  Zhao, Ling ^a   Zheng, Zhe Min ^a   Huang, Yuan ^a   Sun, Hui Min ^a  

^a SHAANXI NORMAL UNIVERSITY   (China)

Author keywords

A+T rich region; Caelifera; Mitochondrial genome; Orthoptera; phylogeny; stem loop secondary structure

Indexed keywords

MITOCHONDRIAL DNA; RIBOSOME RNA; TRANSFER RNA;

ANIMAL; ARTICLE; CLASSIFICATION; GENETICS; GENOME; GRASSHOPPER; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; SPECIES DIFFERENTIATION; CAELIFERA; INSECT GENOME;

ANIMALS; BASE SEQUENCE; DNA, MITOCHONDRIAL; GENETIC SPECIATION; GENOME, INSECT; GRASSHOPPERS; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, RIBOSOMAL; RNA, TRANSFER;

ARTHROPODA; CAELIFERA; EUCHORTHIPPUS; MEKONGIELLA; ORTHOPTERA;

EID: 77955569610     PISSN: 02890003     EISSN: 02890003     Source Type: Journal    
DOI: 10.2108/zsj.27.662     Document Type: Article

References (64)

1. Anderson S, Bankier AT, Barrell BG, de Bruijin MHL, Coulson AR, et al. (1981) Sequence and organization of the human mitochondrial genome. Nature (London) 290: 457-465
2. Bibb MJ, VanEtten RA, Wright CT, Walberg MW, Clayton DA (1981) Sequence and gene organization of mouse mitochondrial DNA. Cell 26: 167-180
3. Boore JL (1999) Animal mitogenomes. Nucleic Acids Res 27: 1767-1780
4. Boore JL (2006) The use of genome-level characters for phylogenetic reconstruction. Trends Ecol Evol 21: 439-446
5. Bullerwell CE, Leigh J, Forget L, Lang BF (2003) A comparison of three fission yeast mitochondrial genomes. Nucleic Acids Res 31: 759-768
6. Cameron SL, Whiting MF (2007) Mitochondrial genomic comparisons of the subterranean termites from the Genus Reticulitermes (Insecta: Isoptera: Rhinotermitidae). Genome 50: 188-202
7. Cameron SL, Miller KB, D'Haese CA, Whiting MF, Barker SC (2004) Mitochondrial genome data alone are not enough to unambiguously resolve the relationships of Entognatha, Insecta and Crustacea sensu lato (Arthropoda). Cladistics 20: 534-557
8. Cameron SL, Barker SC, Whiting MF (2006) Mitochondrial genomics and the new insect order Mantophasmatodea. Mol Phylogenet Evol 38: 274-279
9. Carapelli A, Vannini L, Nardi F, Boore JL, Beani L, Dallai R, Frait F (2006) The mitochondrial genome of the entomophagous endoparasite Xenos vesparum (Insecta: Strepsiptera). Gene 376: 248-259
10. Cardazzo B, Rinaldi T, Frontali L, Carignani G, Palleschi C (1997) Evolution of Mitochondrial Genomes in Yeast: A Study of Mitochondrial Divergence in Two Closely Related Species, Saccharomyces douglasii and Saccharomyces cerevisiae. Mol Biol Evol 14: 200-203
11. Cha SY, Yoon HJ, Lee EM, Yoon MH, Hwang JS, Jin BR, Han YS, Kim I (2007) The complete nucleotide sequence and gene organization of the mitochondrial genome of the bumblebee, Bombus ignitus (Hymenoptera: Apidae). Gene 392: 206-220
12. Clary DO, Wolstenholme DR (1985) The mitochondrial DNA molecule of Drosophila yakuba: nucleotide sequence, gene organization, and genetic code. J Mol Evol 22: 252-271
13. Clary DO, Wolstenholme DR (1987) Drosophila mitochondrial DNA: conserved sequences in the A+T-rich region and supporting evidence for a secondary structure model of the small ribosomal RNA. J Mol Evol 25: 116-125
14. Desutter-Grandcolas L (2003) Phylogeny and the evolution of acoustic communication in extant Ensifera (Insecta, Orthoptera). Zool Scripta 32: 525-561
15. Dowton M, Castro LR, Austin AD (2002) Mitochondrial gene rearrangements as phylogenetic characters in the invertebrates: the examination of genome 'morphology'. Invertebr Syst 16: 345-356
16. 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
17. 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
18. Flook PK, Rowell CHF (1997) The phylogeny of the Caelifera (Insecta, Orthoptera) as deduced from mtrRNA gene sequences. Mol Phylogenet Evol 8: 89-103
19. Flook PK, Rowell CHF, Gellissen G (1995) The sequence, organization, and evolution of the Locusta migratoria mitochondrial genome. J Mol Evol 41: 928-941
20. Flook PK, Klee S, Rowell CHF (1999) Combined molecular phylogenetic analysis of the Orthoptera (Arthropoda, Insecta) and implications for their higher systematics. Systematic Biol 48: 233-253
21. Flook PK, Klee S, 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
22. Garey JR, Wolstenholme DR (1989) Platyhelminth mitochondrial DNA: evidence for early evolutionary origin of a tRNAserAGN that contains a dihydrouridine arm replacement loop, and of serine-specifying AGA and AGG codons. J Mol Evol 28: 374-387
23. Gwynne DT (1995) Phylogeny of the Ensifera (Orthoptera): a hypothesis supporting multiple origins of acoustical signalling, complex spermatophores and maternal care in crickets, katydids, and weta. J Orth Res 4: 203-218
24. Gwynne DT, Morris GK (2002) Tettigoniidae. katydids, long-horned grasshoppers and bushcrickets. Version 26 November 2002. http://tolweb.org/ Tettigoniidae/13298/2002. 11.26 in the tree of life web project, http:// tolweb.org/.
25. Hanada T, Suzuki T, Yokogawa T, Takemoto-Hori C, Sprinzl M, Watanabe K (2001) Translation ability of mitochondrial tRNAs-Ser with unusual secondary structures in an in vitro translation system of bovine mitochondria. Genes Cells 6: 1019-1030
26. Jin XB, Zhang FL (1983) A new species of genus Euchorthippus Tarb. from China (Orthoptera: Acridoidea). Zoological Research 4: 377-380 (in Chinese)
27. 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
28. 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
29. Kim I, Lee EM, Seol KY, Yun EY, Lee YB, Hwang JS, Jin BR (2006) The mitochondrial genome of the Korean hairstreak, Coreana raphaelis (Lepidoptera: Lycaenidae). Insect Mol Biol 15: 217-225
30. Kumar S, Tamura K, Nei M (2004) MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment. Brief Bioinform 5: 150-163
31. Langkjaer RB, Casaregola S, Ussery DW, Gaillardin C, Piskur J (2003) Sequence analysis of three mitochondrial DNA molecules reveals interesting differences among Saccharomyces yeasts. Nucleic Acids Res 31: 3081-3091
32. Lavrov DV, Boore JL, Brown WM (2002) Complete mtDNA sequences of two millipedes suggest a new model for mitochondrial gene rearrangements: duplication and nonrandom loss. Mol Biol Evol 19: 163-169
33. Lewis DL, Farr CL, Farquhar AL, Kaguni LS (1994) Sequence, organization, and evolution of the A+T region of Drosophila melanogaster mitochondrial DNA. Mol Biol Evol 11: 523-538
34. Liu DF, Dong ZM, Zhang DY, Gu YZ, Guo PJ, Hua HR, Jiang GF (2008) Molecular Phylogeny of the Higher Category of Acrididae (Orthoptera: Acridoidea). Zoological Research 29: 585-591
35. Liu N, Hu J, Huang Y (2006) Amplification of grasshoppers complete mitochondrial genomes using long PCR. Chin J Zool 41: 61-65
36. 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
37. 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
38. Nardi F, Spinsanti G, Boore JL, Carapelli A, Dallai R, Frati F (2003) Hexapod origins: monophyletic or paraphyletic? Science 301: 1482e
39. Ojala D, Merkel C, Gelfand R, Attardi G (1980) The tRNA genes punctuate the reading of genetic information in human mitochondrial DNA. Cell 22: 393-403
40. Ojala D, Montoya J, Attardi G (1981) tRNA punctuation model of RNA processing in human mitochondria. Nature 290: 470-474
41. Okimoto R, Macfarlane JL, Wolstenholme DR (1990) Evidence for the frequent use of TTG as the translation initiation codon of mitochondrial protein genes in the nematodes, Ascaris suum and Caenorhabditis elegans. Nucleic Acids Res 18: 6113-6118
42. Perna NT, Kocher TD (1995) Patterns of nucleotide composition at fourfold degenerate sites of animal mitochondrial genomes. J Mol Evol 41: 353-359
43. Petersen RF, Langkjær RB, Hvidtfeldt J, Gartner J, Palmen W, Ussery DW, Piskur J (2002) Inheritance and organisation of the mitochondrial genome differ between two Saccharomyces yeasts. J Mol Biol 318: 627-636
44. Posada D, Crandall KA (1998) Modeltest: testing the model of DNA substitution. Bioinformatics 14: 817-818
45. Rand DM (1993) Endotherms, ectotherms, and mitochondrial genome-size variation. J Mol Evol 37: 281-295
46. Rand DM (2001) The units of selection on mitochondrial DNA. Ann Rev Ecol Syst 32: 415-448
47. Ronquist F, Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574
48. Sheffield NC, Song H, Cameron SL, Whiting MF (2008) A comparative analysis of mitochondrial genomes in Coleoptera (Arthropoda: Insecta) and genome descriptions of six new beetles. Mol Biol Evol 25: 2499-2509
49. Staden R, Beal KF, Bonfield JK (2000) The Staden package, 1998. Methods Mol Biol 132: 115-130
50. Steinberg S, Cedergren R (1994) Structural compensation in atypical mitochondrial tRNAs. Nat Struct Biol 1: 507-510
51. 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
52. Stewart JB, Beckenbach AT (2005) Insect mitochondrial genomics: the complete mitochondrial genome sequence of the meadow spittlebug Philaenus spumarius (Hemiptera: Auchenorrhyncha: Cercopoidae). Genome 48: 46-54
53. Storozhenko SY (1997) Fossil history and phylogeny of orthopteroid insects. In "The Bionomics of Grasshoppers, Katydids and Their Kin" Ed by SK Gangwere, MC Muralirangan, M Muralirangan, CAB International, Oxon, New York, pp 59-82
54. Swofford DL (2002) PAUP*. Phylogenetic analysis using parsimony (* and other methods). Version 4. Sinauer Associates, Sunderland, MA, USA
55. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL-X window interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25: 4876-4882
56. Wolstenholme DR (1992) Animal mitochondrial DNA: structure and evolution. Int Rev Cytol 141: 173-216
57. Yin XC (1984) Grasshoppers and locusts from Qinghai-Xizang Plateau of China. Science Press, Beijing
58. Zhang C, Huang Y (2007) Complete mitochondrial genome of Oxya chinensis (Orthoptera: Aridoidea). Acta Biochimica et Biophysica Sinica 40: 7-18
59. Zhang DX, Hewitt FM (1997) Insect mitochondrial control region: a review of its structure, evolution and usefulness in evolutionary studies. Biochem Syst Ecol 25: 99-120
60. Zhang DX, Szymura JM, Hewitt GM (1995) Evolution and structural conservation of the control region of insect mitochondrial DNA. J Mol Evol 40: 382-391
61. Zheng ZM, Huang Y, Zhou ZJ (2008) New genus and new species of grasshoppers from Henduanshan region, China (Orthoptera: Acridoidea). Acta Zootaxonomica Sinica 33: 363-367
62. Zhou ZJ, Huang Y, Shi FM (2007) The mitochondrial genome of Ruspolia dubia (Orthoptera: Conocephalidae) contains a short A+T-rich region of 70bp in length. Genome 50: 855-866
63. Zhou ZJ, Shi FM, Huang Y (2008) The complete mitogenome of the Chinese bush cricket, Gampsocleis gratiosa (Orthoptera: Tettigonioidea). J Genet Genomics 35: 341-348
64. Zhou ZJ, Huang Y, Shi FM, Ye HY (2009) The complete mitochondrial genome of Deracantha onos (Orthoptera: Bradyporidae). Mol Biol Rep 36: 7-12