Eur. J. Entomol. 97 (3): 387-394, 2000 | DOI: 10.14411/eje.2000.059
Application of ubiquitin SSCP analysis in taxonomic studies within the subgenus Orinocarabus (Coleoptera: Carabidae: Carabus)
- 1 Institute of Applied Zoology, Technical University of Munich, D-85350 Freising, Germany; e-mail: d.sedlmair@lrz.tum.de
- 2 Institute of Physiology, Technical University of Munich, D-85350 Freising, Germany
SSCP (single-strand conformation polymorphism) analyses of ubiquitin genes were used to investigate evolutionary relationships within the subgenus Orinocarabus of the genus Carabus. After SSCP electrophoresis of PCR-amplified ubiquitin copies, population-specific band patterns were obtained. Ubiquitin-SSCP-analyses of the six central European Orinocarabus species, including three subspecies and thirteen populations, resulted in a dendrogram that differed from that based on morphology. Phylogenetic analysis of mitochondrial DNA (mtDNA) did not support the SSCP dendrogram, but was in good accordance with the taxonomy based on morphological characters. The reason for the discrepancies seems to be evolutionary conservation of the ubiquitin genes. The time that elapsed since the evolution of the closely related Orinocarabus species is too short for concerted evolution of the ubiquitin genes.
Keywords: Carabidae, Carabus, Orinocarabus, Taxonomy, ubiquitin, SSCP, DNA
Received: September 7, 1999; Accepted: December 2, 1999; Published: October 30, 2000 Show citation
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References
- Barrio R., del Arco A., Cabrera H.L. & Arribas C. 1994: Structure and expression of the Drosophila ubiquitin-80-amino-acid fusion-protein gene. Biochem. J. 302: 237-244
Go to original source... - Boge A., Gerstmeier R. & Einspanier R. 1994: Molecular polymorphism as a tool for differentiating ground beetles (Carabus species): application of ubiquitin PCR/SSCP analysis. Insect Mol. Biol. 3: 267-271
Go to original source... - Bond U. & Schlesinger M. 1985: Ubiquitin is a heat shock protein on chicken embryo fibroblasts. Mol. Cell. Biol. 5: 949-956
Go to original source... - Bonner W.M., Hatch C.L. & Wu R.S. 1987: Ubiquitinated histones and chromatin. In Rechsteiner M. (ed.): Ubiquitin. Plenum Press, New York, pp. 157-172
Go to original source... - Cabrera H.L., Barrio R. & Arribas C. 1992: Structure and expression of the Drosophila ubiquitin-52-amino-acid fusion-protein gene. Biochem. J. 286: 281-288
Go to original source... - DeSalle R. & Templeton A.R. 1992: The mtDNA genealogy of closely related Drosophila silvestris. J. Hered. 83: 211-216
Go to original source... - DeSalle R., Freedman T., Praeger E.M. & Wilson A.C. 1987: Tempo and mode of sequence evolution in mitochondrial DNA of Hawaiian Drosophila. J. Mol. Evol. 26: 157-164
Go to original source... - Deuve T. 1991: La nomenclature taxonomique du genre Carabus. Sciences Naturelles, Venette, 198 pp
- Duering A. & Mossakowski D. 1995: Geographische Variation der mitochondrialen DNA bei Cychrus caraboides (Linne 1758). Mitt. Dt. Ges. Allg. Angew. Entomol. 10: 401-405
- Felsenstein J. 1993: PHYLIP (Phylogeny Inference Package). Version 3.5p. Distributed by the author. Department of Genetics, University of Washington, Seattle. Hershko A. & Ciechanover A. 1986: The ubiquitin pathway for degradation of intracellular proteins. Prog. Nucleic Acid Res. Mol. Biol. 33: 19-56
Go to original source... - Hiss R.H., Norris D.E., Dietrich C.H., Whitcombe R.F., West D.F., Bosio C.F., Kambhampati S., Piesman J., Antolin M.F. & Black W.C. 1994: Molecular taxonomy using single-strand conformation polymorphism (SSCP) analysis of mitochondrial ribosomal DNA genes. Insect Mol. Biol. 3: 171-182
Go to original source... - Ishikawa R. 1973: Notes on some basic problems in the taxonomy and the phylogeny of the subtribe Carabina (Coleoptera, Carabidae). Bull. Natn. Sci. Mus. (Tokyo) 16: 191-215
- Ishikawa R. 1978: A revision of the higher taxa of the subtribe Carabina (Coleoptera, Carabidae). Bull. Natn. Sci. Mus. (Tokyo) Ser. A (Zool.) 4: 45-68
- Ishikawa R. 1979: A preliminary revision of the Carabogenici of the subtribe Carabina (Coleoptera, Carabidae). Bull. Natn. Sci. Mus. (Tokyo) Ser. A (Zool.) 5: 95-114
- Jentsch S., McGrath J.P. & Varshavsky A. 1987: The yeast DNA repair gene RAD6 encodes a ubiquitin-conjugating enzyme. Nature (London) 329: 131-134
Go to original source... - Koekemoer L.L., Lochouarn L., Hunt R.H. & Coetzee M. 1999: Single-strand conformation polymorphism analysis for identification of four members of the Anopheles funestus (Diptera: Culicidae) group. J. Med. Entomol. 36: 125-130
Go to original source... - Kopski K.M. & Huffaker T.C. 1997: Suppressors of the ndc10-2 mutation: A role for the ubiquitin system in Saccharomyces cerevisiae kinetochore function. Genetics 147: 409-420
Go to original source... - Krebber H., Woestmann C. & Bakker-Grunwald T. 1994: Evidence for the existence of a single ubiquitin gene in Giardia lamblia. FEBS Letters 343: 234-236
Go to original source... - Lee H., Simon J.A. & Lis J.T. 1988: Structure and expression of ubiquitin genes of Drosophila melanogaster. Mol. Cell. Biol. 8: 4727-4735
Go to original source... - Miller J.C. 1990: RESTSITE package. Whitehead Institute 9, Cambridge Center, Cambridge, MA. Myer A. & Schwartz L.M. 1996: Allelic variation of the polyubiquitin gene in the tobacco hawkmoth, Manduca sexta, and its regulation by heat shock and programmed cell death. Insect Biochem. Mol. Biol. 26: 1037-1046
Go to original source... - Nakamura H., Kaneko S., Yamaoka Y. & Kakishima M. 1998: PCR-SSCP analysis of the ribosomal DNA ITS regions of the willow rust fungi in Japan. Ann. Phytopathol. Soc. Jap. 64: 102-109
Go to original source... - Nei M. & Li W.H. 1979: Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Natn. Acad. Sci. USA 76: 5269-5273
Go to original source... - Nenoi M., Mita K., Ichimura S. & Kawano A. 1998: Higher frequency of concerted evolutionary events in rodents than in man at the polyubiquitin gene VNTR locus. Genetics 148: 867-876
Go to original source... - Ohsako T., Wang G.Z. & Miyashita N.T. 1996: Polymerase chain reaction-single strand conformational polymorphism analysis of intra- and interspecific variations in organellar DNA regions of Aegilops mutica and related species. Genes Genet. Syst. 71: 281-292
Go to original source... - Orita M., Suzuki Y., Sekiya T. & Hayashi K. 1989a: Rapid and sensitive detection of point mutations and DNA polymorphisms using the polymerase chain reaction. Genomics 5: 874-879
Go to original source... - Orita M., Iwahana H., Kanazawa H., Hayashi K. & Sekiya T. 1989b: Detection of polymorphisms of human DNA by gel electrophoresis as single strand confirmation polymorphisms. Proc. Natn. Acad. Sci USA 86: 2766-2770
Go to original source... - Prueser F. 1996: Variabilitaet mitochondrialer DNA-Sequenzen und die Phylogenie der Gattung Carabus Linne 1758 (Coleoptera: Carabidae). PhD dissertation, Universitaet Bremen, 173 pp
- Prueser F. & Mossakowski D. 1998: Low substitution rates in mitochondrial DNA in Mediterranean carabid beetles. Insect Mol. Biol. 7: 121-128
Go to original source... - Satta Y. & Takahata N. 1990: Evolution of Drosophila mitochondrial DNA and the history of the melanogaster group. Proc. Natn. Acad. Sci. USA 87: 9558-9562
Go to original source... - Schwartz L.M., Myer A., Kosz L., Engelstein M. & Maier C. 1990: Activation of polyubiquitin gene expression during developmentally programmed cell death. Neuron 5: 411-419
Go to original source... - Sharp P.M. & Li W.H. 1987: Ubiquitin genes as a paradigm of concerted evolution of tandem repeats. J. Mol. Evol. 25: 58-64
Go to original source... - Sheffield V.C., Beck J.S., Kwitek A.E., Sandstrom D.W. & Stone E.M. 1993: The sensitivity of single-strand conformation polymorphism analysis for the detection of single base substitutions. Genomics 16: 325-332
Go to original source... - Sneath P.H.A. & Sokal R.R. 1973: In: Numerical Taxonomy. W.H. Freeman, San Francisco, pp. 230-234
- Sperling F.A.H. & Hickey D.A. 1994: Mitochondrial DNA sequence variation in the spruce budworm species complex (Choristoneura: Lepidoptera). Mol. Biol. Evol. 11: 656-665
- Stothard J.R., Yamamoto Y., Cherchi A., Garcia A.L., Valenta S.A.S., Schofield C.J. & Miles M.A. 1998: A preliminary survey of mitochondrial sequence variation in Triatominae (Hemiptera: Reduviidae) using polymerase chain reaction-based single strand conformational polymorphism (SSCP) analysis and direct sequencing. Bull. Entomol. Res. 88: 553-560
Go to original source... - Swindle J., Ajioka J., Eisen H., Sanwal B., Jacquemot C., Browder Z. & Buck G. 1988: The genomic organisation and transcription of the ubiquitin genes of Trypanosoma cruzi. EMBO J. 7: 1121-1127
Go to original source... - Swofford D.L. 1993: PAUP: Phylogenetic Analysis Using Parsimony. Version 3.1.1. Illinois Natural History Survey, Champaign, Illinois. Tan Y., Bishoff S.T. & Riley M.A. 1993: Ubiquitins revisited: Further examples of within- and between-locus concerted evolution. Mol. Phylog. Evol. 2: 351-360
Go to original source... - Tokue Y., Sugano K., Noda T., Saito D., Shimosato Y., Ohkura H., Kakizoe T. & Sekiya T. 1995: Identification of mycobacteria by nonradioisotopic single-strand conformation polymorphism analysis. Diagn. Microbiol. Infect. Dis. 23: 129-133
Go to original source... - Travis S.E. & Keim P. 1995: Differentiating individuals and populations of mule deer using DNA. J. Wildl. Manag. 59: 824-831
Go to original source... - Vogler A.P. & DeSalle R. 1993: Phylogeographic patterns in coastal North American tiger beetles (Cicindela dorsalis Say) inferred from mitochondrial DNA sequences. Evolution 47: 1192-1202
Go to original source... - Vogler A.P., DeSalle R., Assmann T., Knisley C.B. & Schultz T.D. 1993: Molecular population genetics of the endagered tiger beetle Cicindela dorsalis (Coleoptera: Cicindelidae). Ann. Entomol. Soc. Am. 86: 142-152
Go to original source... - Vogler A.P., Welsh A. & Barraclough T.G. 1998: Molecular phylogeny of the Cicindela maritima (Coleoptera: Cicindelidae) group indicates fast radiation in western North America. Ann. Entomol. Soc. Am. 91: 185-194
Go to original source... - Vrana P.B. & Wheeler W.C. 1996: Molecular evolution and phylogenetic utility of the polyubiquitin locus in mammals and higher vertebrates. Mol. Phylog. Evol. 6: 259-269
Go to original source... - Walsh T.J., Francesconi A., Kasai M. & Chanock S.J. 1995: PCR and single-strand conformational polymorphism for recognition of medically important opportunistic fungi. J. Clin. Microbiol. 33: 3216-3220
Go to original source... - Weller S.J. & Pashley D.P. 1995: In search of butterfly origins. Mol. Phylog. Evol. 4: 235-246
Go to original source... - Wiborg O., Pedersen M.S., Wind A., Berglund L.E., Marcker K.A. & Vuust J. 1985: The human ubiquitin multigene family: some genes contain multiple directly repeated ubiquitin coding sequences. EMBO J. 4: 755-759
Go to original source... - Wong S., Elgort M.G., Gottesdiener K. & Campbell D.A. 1992: Allelic polymorphism of the Trypanosoma brucei polyubiquitin gene. Mol. Biochem. Parasitol. 55: 187-196
Go to original source...
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