Intragenomic Variation Within ITS1 and ITS2 of Freshwater Crayfishes (Decapoda: Cambaridae): Implications for Phylogenetic and Microsatellite Studies
Tóm tắt
Từ khóa
Tài liệu tham khảo
Brown, D. D., P. C. Wensink, and E. Jordan. 1972. A comparison of the ribosomal DNA's of Xenopus laevis and Xenopus mulleri: the evolution of tandem genes. J. Mol. Biol. 63:57–73.
Buckler, E. S. IV, and T. P. Holtsford. 1996. Zea ribosomal repeat evolution and substitution patterns. Mol. Biol. Evol. 13:623–632.
Buckler, E. S. IV, A. Ippolito, and T. P. Holtsford. 1997. The evolution of ribosomal DNA: divergent paralogues and phylogenetic implications. Genetics 145:821–832.
Carranza, S., G. Giribet, C. Ribera, J. Baguña, and M. Riutort. 1996. Evidence that two types of 18S rDNA coexist in the genome of Dugesia (Schmidtea) mediterranea (Platyhelminthes, Turbellaria, Tricladida). Mol. Biol. Evol. 13:824–832.
Crandall, K. A., and J. F. Fitzpatrick Jr. 1996. Crayfish molecular systematics: using a combination of procedures to estimate phylogeny. Syst. Biol. 45:1–27.
Dubcovsky, J., and J. Dvorak. 1995. Ribosomal RNA multigene loci: nomads of the Triticeae genomes. Genetics 140:1367–1377.
Fabry, S., A. Köhler, and A. W. Coleman. 1999. Intraspecies analysis: comparison on ITS sequence data and gene intron sequence data with breeding data for a worldwide collection of Gonium pectorale. J. Mol. Evol. 48:94–101.
Felsenstein, J. 1981. Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol. 17:368–376.
Fetzner, J. W. Jr., and K. A. Crandall. 1999. Genetic variability within and among populations of the Golden crayfish (Orconectes luteus) estimated using AFLP's. Freshw. Crayfish (in press).
Fritz, G. N., J. Conn, A. Cockburn, and J. Seawright. 1994. Sequence analysis of the ribosomal DNA internal transcribed spacer 2 from populations of Anopheles nuneztovari (Diptera: Culicidae). Mol. Biol. Evol. 11:406–416.
Goldman, N. 1993. Simple diagnostic statistical tests of models of DNA substitution. J. Mol. Evol. 37:650–651.
Gonzalez, I. S., J. E. Sylvester, T. F. Smith, D. Stambolian, and R. D. Schmickel. 1990. Ribosomal RNA gene sequences and hominoid phylogeny. Mol. Biol. Evol. 7:203–219.
Hasegawa, M., K. Kishino, and T. Yano. 1985. Dating the human-ape splitting by a molecular clock of mitochondrial DNA. J. Mol. Evol. 22:160–174.
Huelsenbeck, J. P., and K. A. Crandall. 1997. Phylogeny estimation and hypothesis testing using maximum likelihood. Annu. Rev. Ecol. Syst. 28:437–466.
Hugall, A., J. Stanton, and C. Mortiz. 1999. Reticulate evolution and the origins of ribosomal internal transcribed spacer diversity in apomictic Meloidogyne. Mol. Biol. Evol. 16:157–164.
Jukes, T. H., and C. R. Cantor. 1969. Evolution of protein molecules. Pp. 21–132 in H. M. Munro, ed. Mammalian protein metabolism. Academic Press, New York.
Kishino, H., and Hasegawa, M. 1989. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea. J. Mol. Evol. 29:170–179.
Koch, M., K. Mummenhoff, and H. Hurka. 1999. Molecular phylogenetics of Cochlearia (Brassicaceae) and allied genera based on nuclear ribosomal ITS DNA sequence analysis contradict traditional concepts of their evolutionary relationship. Plant Syst. Evol. 216:207–230.
Leskinen, E., and C. Alström-Rapaport. 1999. Molecular phylogeny of Salicaceae and closely related Flacoutliacea: evidence from 5.8S, ITS1, and ITS2 of the rDNA. Plant Syst. Evol. 215:209–227.
Liao, D., and A. M. Weiner. 1995. Concerted evolution of the tandemly repeated genes encoding primate U2 small nuclear RNA (the RNU2 locus) does not prevent rapid diversification of the (CT)n·(GA)n microsatellite embedded within the U2 repeat unit. Genomics 30:583–593.
Miller, B. R., M. B. Crabtree, and H. M. Savage. 1996. Phylogeny of fourteen Culex mosquito species, including the Culex pipiens complex, inferred from the internal transcribed spacers of ribosomal DNA. Insect Mol. Biol. 5:93–107.
O'Donnell, K., and E. Cigelnik. 1997. Two divergent intragenomics rDNAITS2 types within a monophyletic lineage of the fungus Fusarium are nonorthologous. Mol. Phylogenet. Evol. 7:103–116.
Odorico, D. M., and D. J. Miller. 1997. Variation in the ribosomal internal transcribed spacers and 5.8S rDNA among five species of Acropora (Cnidaria; Scleactinin): patterns of variation consistent with reticulate evolution. Mol. Biol. Evol. 14:465–473.
Orti, G., D. E. Pearse, and J. C. Avise. 1997. Phylogenetic assessment of length variation at a microsatellite locus. Proc. Natl. Acad. Sci. USA 94:10745–10749.
Pemberton, J. M., J. Slate, D. R. Bancroft, and J. A. Barrett. 1995. Nonamplifying alleles at microsatellite loci: a caution for parentage and population studies. Mol. Ecol. 4:249–252.
Posada, D., and K. A. Crandall. 1998. Modeltest: testing the model of DNA substitution. Bioinformatics 14:817–818.
Ritland, C. E., K. Ritland, and N. A. Straus. 1993. Variation in the ribosomal internal transcribed spacers (ITS1 and ITS2) among eight taxa of the Mimulus guttatus species complex. Mol. Biol. Evol. 10:1273–1288.
Rzhetsky, A., and M. Nei. 1992. A simple method for estimating minimum evolution trees. Mol. Biol. Evol. 9:945–967.
Schulenberg, J. H. G. v. d., U. Englisch, and J. W. Wägele. 1999. Evolution of ITS1 rDNA in the Digenea (Platyhelminthes: Trematoda): 3′ end sequence conservation and its phylogenetic utility. J. Mol. Evol. 48:2–12.
Strassmann, J. E., C. R. Solis, J. M. Peters, and D. C. Queller. 1996. Strategies for finding and using highly polymorphic DNA microsatellite loci for studies of genetic relatedness and pedigrees. Pp. 163–180 in J. D. Ferraris and S. R. Palumbi, eds. Molecular zoology: advances, strategies and protocols. Wiley-Liss, New York.
Susanna, A., T. Garnatje, and N. Garcia-Jacas. 1999. Molecular phylogeny of Cheirolophus (Asteraceae: Cardueae-Centaureinae) based on ITS sequences of nuclear ribosomal DNA. Plant Syst. Evol. 214:147–160.
Swofford, D. L. 1999. PAUP*: phylogenetic analysis using parsimony (and other methods). Version 4.0b1. Sinauer, Sunderland, Mass.
Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673–4680.
Turner, T. F., L. R. Richardson, and J. R. Gold. 1998. Polymorphic microsatellite DNA markers in red drum (Sciaenops ocellatus). Mol. Ecol. 7:1771–1773.
Vogler, A. P., and R. DeSalle. 1994. Evolution and phylogenetic information content of the ITS-1 region in the tiger beetle, Cicindela dorsalis. Mol. Biol. Evol. 11:393–405.
Wesson, D. M., C. H. Porter, and F. H. Collins. 1992. Sequence and secondary structure comparisons of ITS rDNA in mosquitoes (Diptera: Culicidae). Mol. Phylogenet. Evol. 1:253–269.
Yang, Z. 1994. Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods. J. Mol. Evol. 39:306–314.