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Characterization of mitochondrial control region, two intergenic spacers and tRNAs of Zaprionus indianus (Diptera: Drosophilidae)

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Abstract

The control region in insects is the major noncoding region in animal mitochondrial DNA (mtDNA), and is responsible for a large part of the variation in the DNA sequence and size of the genome of this organelle. In this study, the mtDNA control region, two intergenic spacers and tRNA genes of a Zaprionus indianus strain were cloned, sequenced and compared with other Drosophila species. The overall A+T content in the Z. indianus control region is 94.3%, and a comparison with other Drosophila species demonstrated that the most conserved region appears to be the 420 base pairs nearest to the tRNAile, similar to the findings of other authors. We also describe conserved sequence blocks, including a poly-T involved in the replication process of Drosophila mtDNA; a putative secondary structure also involved in the replication process and repeated sequences. tRNAile sequence demonstrated the greatest variability when the tRNA sequences of species were compared.

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References

  • Benson G (1999) Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res 27:573–580

    Article  CAS  PubMed  Google Scholar 

  • Boore JL (1999) Animal mitochondrial genomes. Nucleic Acids Res 27:1767–1780

    Article  CAS  PubMed  Google Scholar 

  • Brehm A, Harris DJ, Hernández M, Cabrera VM, Larruga JM, Pinto FM, González AM (2001) Structure and evolution of the mitochondrial DNA complete control region in the Drosophila subobscura subgroup. Insect Mol Biol 10:573–578

    Article  CAS  PubMed  Google Scholar 

  • Clary DO, Wolstenholme DR (1987) Drosophila mitochondrial DNA: conserved sequence 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

    Article  CAS  PubMed  Google Scholar 

  • Da Lage JL, Kergoat GJ, Maczkowiak F, Silvain JF, Cariou ML, Lachaise D (2007) A phylogeny of Drosophilidae using the Amyrel gene: questioning the Drosophila melanogaster species group boundaries. J Zool Syst Evol Res 45:47–63

    Article  Google Scholar 

  • De-Xing Z, Szymura JM, Hewitt GM (1995) Evolution and structural conservation of the control region of insect mitochondrial DNA. J Mol Evol 40:382–391

    Article  Google Scholar 

  • Duarte GT, Azeredo-Espin AML, Junqueira ACM (2008) The mitochondrial control region of blowflies (Díptera: Calliphoridae): a hot spot for mitochondrial genome rearrangements. J Med Entomol 45:667–676

    Article  CAS  PubMed  Google Scholar 

  • Fauron CMR, Wolstenholme DR (1980) Intraspecific diversity of nucleotide sequences within the adenine+thymine-rich region of mitochondrial DNA molecules of Drosophila mauritiana, Drosophila melanogaster and Drosophila simulans. Nucleic Acids Res 8:5391–5410

    Article  CAS  PubMed  Google Scholar 

  • Garcia ACL, Valiati VH, Gottschalk MS, Rohde C, Valente VLS (2008) Two decades of colonization of the urban environment of Porto Alegre, southern Brazil, by Drosophila paulistorum (Diptera, Drosophilidae). Iheringia (Zool) 98:329–338

    Google Scholar 

  • Graur D, Li WH (1999) Gene duplication, exon shuffling and concerted evolution. In: Fundamentals of molecular evolution. Sinauer Associates Publisher, Sunderland, pp 249–322

  • Grimaldi DA (1990) A phylogenetic revised classification of genera in the Drosophilidae (Diptera). Bull Am Mus Nat Hist 197:1–139

    Google Scholar 

  • Inohira K, Hara T, Matsuura ET (1997) Nucleotide sequence divergence in the A+T rich region of mitochondrial DNA in Drosophila simulans and Drosophila mauritiana. Mol Biol Evol 14:814–822

    CAS  PubMed  Google Scholar 

  • Katoh T, Tamura K, Aotsuka T (2000) Phylogenetic position of the subgenus Lordiphosa of the genus Drosophila (Diptera: Drosophilidae) inferred from alcohol dehydrogenase (Adh) gene sequences. J Mol Evol 51:122–130

    CAS  PubMed  Google Scholar 

  • Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120

    Article  CAS  PubMed  Google Scholar 

  • Komiya K, Kondoh T, Aotsuka T (1995) Evolution of the noncoding regions in Drosophila mitochondrial DNA: two intergenic regions. Biochem Genet 33:73–82

    Article  CAS  PubMed  Google Scholar 

  • Kumar S, Tamura K, Nei M (2004) MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5:150–163

    Article  CAS  PubMed  Google Scholar 

  • Kwiatowski J, Ayala FJ (1999) Phylogeny of Drosophila and related genera: conflict between molecular and anamotical analyses. Mol Phylogenet Evol 13:319–328

    Article  CAS  PubMed  Google Scholar 

  • Monforte A, Barrio E, Latorre A (1993) Characterization of the length polymorphism in the A+T-rich region of the Drosophila obscura group species. J Mol Evol 36:214–223

    Article  CAS  PubMed  Google Scholar 

  • Moritz C, Dowling TE, Brown WM (1987) Evolution of animal mitochondrial DNA: relevance for population biology and systematics. Annu Rev Ecol Syst 18:269–292

    Article  Google Scholar 

  • Oliveira MT, Azeredo-Espin AML, Lessinger AC (2007) The mitochondrial DNA control region of Muscidae flies: evolution and structural conservation in a dipteran context. J Mol Evol 64:519–527

    Article  CAS  PubMed  Google Scholar 

  • Pélandakis M, Solignac M (1993) Molecular phylogeny of Drosophila based on ribosomal RNA sequences. J Mol Evol 37:525–543

    Article  PubMed  Google Scholar 

  • Robe LJ, Valente VLS, Budnik M, Loreto ELS (2005) Molecular phylogeny of the subgenus Drosophila (Diptera, Drosophilidae) with an emphasis on Neotropical species and groups: a nuclear versus mitochondrial gene approach. Mol Phylogenet Evol 36:623–640

    Article  CAS  PubMed  Google Scholar 

  • Saccone C, Pesole G, Sbisa E (1991) The main regulatory region of mammalian mitochondrial DNA: structure-function model and evolutionary pattern. J Mol Evol 33:83–91

    Article  CAS  PubMed  Google Scholar 

  • Saito S, Tamura K, Aotsuka T (2005) Replication origin of mitochondrial DNA in insects. Genetics 171:1695–1705

    Article  CAS  PubMed  Google Scholar 

  • Sambrook J, Fritsch EF, Maniatis T (1989) Commonly used techniques in molecular cloning. In: Sambrook J, Fritsch EF, Maniatis T (eds) Molecular cloning: a laboratory manual, 2nd edn. Cold Spring Harbour Laboratory Press, New York, pp E.3–E.4

    Google Scholar 

  • Schulteis AS, Weigt LA, Hendricks AC (2002) Arrangement and structural conservation of the mitochondrial control region of two species of Plecoptera: utility of tandem repeat-containing regions in the studies of population genetics and evolutionary history. Insect Mol Biol 11:605–610

    Article  Google Scholar 

  • Silva NM, Fantinel CC, Valente VLS, Valiati VH (2005) Population dynamics of the invasive species Zaprionus indianus (Gupta) (Diptera: Drosophilidae) in communities of Drosophilids of Porto Alegre City, southern of Brazil. Neotrop Entomol 34:363–374

    Google Scholar 

  • Tatarenkov A, Kwiatowski J, Skarecky D, Barrio E, Ayala FJ (1999) On the evolution of Dopa decarboxylase (Ddc) and Drosophila systematics. J Mol Evol 48:445–462

    Article  CAS  PubMed  Google Scholar 

  • Thao ML, Baumann L, Baumann P (2004) Organization of the mitochondrial genomes of whiteflies, aphids, and psyllids (Hemiptera, Sternorrhyncha). BMC Evol Biol 4:25–37

    Article  PubMed  Google Scholar 

  • Throckmorton LH (1975) The phylogeny, ecology and geography of Drosophila. In: King RC (ed) Handbook of genetics. Plenum Press, New York, pp 421–469

    Google Scholar 

  • Tsujino F, Kosemura A, Inohira K, Hara T, Otsuka YF, Obara MK, Matsuura ET (2002) Evolution of the A+T rich region of mitochondrial DNA in the melanogaster species subgroup of Drosophila. J Mol Evol 55:573–583

    Article  CAS  PubMed  Google Scholar 

  • Vilela CR, Teixeira EP, Stein CP (2001) Mosca-africana-do-figo, Zaprionus indianus (Diptera: Drosophilidae). In: Vilela EF, Zucchi RA, Cantor F (eds) Histórico e impacto das pragas introduzidas no Brasil. Holos Editora, São Paulo, pp 48–52

    Google Scholar 

  • Yassin A, Capy P, Ravazzi LMR, Ogereu D, David JR (2008a) DNA barcode discovers two cryptic species and two geographical radiations in the invasive drosophilid Zaprionus indianus. Mol Ecol Notes 8:491–501

    CAS  Google Scholar 

  • Yassin A, Araripe LO, Capy P, Da Lange JL, Klaczko LB, Maisonhaute C, Ogereau D, David JR (2008b) Grafting the molecular phylogenetic tree with morphological branches to reconstruct the evolutionary history of the genus Zaprionus (Diptera, Drosophilidae). Mol Phylogenet Evol 47:903–915

    Article  CAS  PubMed  Google Scholar 

  • Zhang D, Hewitt GM (1997) Insect mitochondrial control region: a review of its structure, evolution and usefulness in evolutionary studies. Biochem Syst Ecol 25:99–120

    Article  Google Scholar 

  • Zhang D, Szymura JM, Hewitt GM (1995) Evolution and structural conservation of the control region of insect mitochondrial DNA. J Mol Evol 40:382–391

    Article  CAS  PubMed  Google Scholar 

  • Zuker M (2003) Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res 3:3406–3415

    Article  Google Scholar 

Download references

Acknowledgments

This work was supported by grants from the Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq), Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES), Fundação de Amparo à Pesquisa do Estado do Rio Grande do Sul (FAPERGS) and Unidade de Pesquisa e Pós Graduação da UNISINOS. We are grateful to Igor Radamés Oliveira for technical support and anonymous referees for the careful analysis of the manuscript.

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Authors and Affiliations

  1. Laboratório de Genética Animal, Centro de Biologia Molecular e Engenharia Genética (CBMEG), Universidade Estadual de Campinas (UNICAMP), P.O. Box 6010, Campinas, SP, 13083-875, Brazil

    Norma Machado da Silva

  2. Laboratório de Biologia Molecular, Universidade do Vale do Rio dos Sinos, Av. Unisinos, 950, P.O. Box 275, São Leopoldo, RS, 93022-000, Brazil

    Aline de Souza Dias & Victor Hugo Valiati

  3. Departamento de Genética, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Av. Bento Gonçalves, 9500, P.O. Box 15053, Porto Alegre, RS, 91501-970, Brazil

    Norma Machado da Silva & Vera Lúcia da Silva Valente

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  1. Norma Machado da Silva
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  2. Aline de Souza Dias
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  3. Vera Lúcia da Silva Valente
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  4. Victor Hugo Valiati
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Correspondence to Norma Machado da Silva.

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da Silva, N.M., de Souza Dias, A., da Silva Valente, V.L. et al. Characterization of mitochondrial control region, two intergenic spacers and tRNAs of Zaprionus indianus (Diptera: Drosophilidae). Genetica 137, 325–332 (2009). https://doi.org/10.1007/s10709-009-9396-5

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  • DOI: https://doi.org/10.1007/s10709-009-9396-5

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