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Chloroplast DNA variation among five species ofRanunculaceae: Structure, sequence divergence, and phylogenetic relationships

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Abstract

A restriction site map of the chloroplast genome ofCaltha palustris L. (Ranunculaceae) has been constructed for 13 restriction endonucleases using filter hybridization with cloned tobacco chloroplast DNA fragments. A size of 153.8 kb has been estimated for theCaltha chloroplast genome. Forty-six chloroplast genes and four open reading frames have been mapped using small tobacco chloroplast gene probes. Chloroplast DNA sequence divergence has been estimated for all pairs of five species ofRanunculaceae, Caltha palustris, Ranunculus bulbosus, R. fascicularis, R. recurvatus, andTrollius ledebourii, and ranges between 0.2% and 9.6% for the total genome. Divergence values are much higher in the small and large single copy regions than in the inverted repeat. Phylogenetic relationships between the five species have been hypothesized using chloroplast DNA restriction site mapping. One hundred and six informative restriction site mutations have been detected using eleven restriction endonucleases. Cladistic analyses of the restriction site mutations have been performed using Wagner and Dollo parsimony algorithms, and confidence intervals have been calculated for the resulting monophyletic groups using bootstrapping. It is demonstrated that restriction site comparisons are applicable to theRanunculaceae on intergeneric level, with the exception of groups having extensive genomic rearrangements. Moreover, sequence divergence is low enough at the interspecific level to allow phylogenetic analyses within genera such asRanunculus.

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References

  • Baldwin, B. G., Kyhos, D. W., Dvorák, J., 1990: Chloroplast DNA evolution and adaptive radiation in the Hawaiian silversword alliance (Asteraceae-Madiinae). — Ann. Missouri Bot. Gard.77: 96–109.

    Google Scholar 

  • Baum, B. R., Bailey, L. G., 1989: Species relationships in theHordeum murinum aggregate viewed from chloroplast DNA restriction fragment patterns. — Theor. Appl. Genet.78: 311–317.

    Google Scholar 

  • Bremer, B. B., Jansen, R. K., 1991: Comparative restriction site mapping of chloroplast DNA implies new phylogenetic relationships withinRubiaceae. — Amer. J. Bot.78: 198–213.

    Google Scholar 

  • Chase, M. W., Palmer, J. D., 1989: Chloroplast DNA systematics of lilioid monocots: resources, feasibility, and an example from theOrchidaceae. — Amer. J. Bot.76: 1720–1730.

    Google Scholar 

  • Clegg, M. T., Rawson, J. R. Y., Thomas, K., 1984: Chloroplast DNA variation in pearl millet and related species. — Genetics106: 449–461.

    Google Scholar 

  • Coates, D., Cullis, C. A., 1987: Chloroplast DNA variability amongLinum species. — Amer. J. Bot.74: 260–268.

    Google Scholar 

  • Crawford, D. J. Palmer, J. D., Kobayashi, M., 1990: Chloroplast DNA restriction site variation and the phylogeny ofCoreopsis sectionCoreopsis (Asteraceae). — Amer. J. Bot.77: 552–558.

    Google Scholar 

  • Cronquist, A., 1981: An integrated system of classification of flowering plants. — New York: Columbia University Press.

    Google Scholar 

  • Crouse, E. J., Schmitt, J. M., Bohnert, H., 1985: Chloroplast and cyanobacterial genomes, genes and RNAs: a compilation. — Pl. Mol. Biol. Rep.3: 43–89.

    Google Scholar 

  • DeBonte, L. R., Matthews, B. F., Wilson, K. G., 1984: Variation of plastid and mitochondrial DNAs in the genusDaucus. — Amer. J. Bot.71: 932–940.

    Google Scholar 

  • Doebley, J., Renfroe, W., Blanton, A., 1987: Restriction site variation in theZea chloroplast genome. — Genetics117: 139–147.

    Google Scholar 

  • Downie, S. R., Palmer, J. D., 1991: Use of chloroplast DNA rearrangements in reconstructing plant phylogeny. — InSoltis, D. E., Soltis, P. S., Doyle, J. J., (Eds.): Plant molecular systematics. — New York: Chapman and Hall.

    Google Scholar 

  • Doyle, J. J., Doyle, J. L., 1987: A rapid DNA isolation procedure for small quantities of fresh leaf tissue. — Phytochem. Bull.19: 11–15.

    Google Scholar 

  • —, —, 1990: Chloroplast DNA polymorphism and phylogeny in the B genome ofGlycine subgenusGlycine (Leguminosae). — Amer. J. Bot.77: 772–782.

    Google Scholar 

  • Felsenstein, J., 1985: Confidence limits on phylogenies: an approach using the bootstrap. — Evolution39: 783–791.

    Google Scholar 

  • - 1989: PHYLIP. Phylogenetic Inference Package, version 3.01.

  • Goepfert, D., 1974: Karyotypes and DNA content in species ofRanunculus L. and related genera. — Bot. Not.127: 464–489.

    Google Scholar 

  • Gounaris, I., Michalowski, C. B., Bohnert, H. J., Price, C. A., 1986: Restriction and gene maps of plastid DNA fromCapsicum annuum. — Curr. Genet.11: 7–16.

    Google Scholar 

  • Green, R. M., Vardi, A., Galun, E., 1986: The plastome ofCitrus. Physical map, variation amongCitrus cultivars and species and comparison with related genera. — Theor. Appl. Genet.72: 170–177.

    Google Scholar 

  • Gregory, W. C., 1941: Phylogenetic and cytological studies in theRanunculaceae Juss. — Transact. Amer. Phil. Soc., n. s.31: 443–521.

    Google Scholar 

  • Hansmann, P., 1987: Daffodil chromoplast DNA: Comparison with chloroplast DNA, physical map, and gene localization. — Z. Naturforsch.42c: 118–122.

    Google Scholar 

  • Heinhorst, S., Gannon, G. C., Galun, E., Kenschaft, L., Weissbach, A., 1988: Clone bank and physical and genetic map of potato chloroplast DNA. — Theor. Appl. Genet.75: 244–251.

    Google Scholar 

  • Hoot, S. B., Palmer, J. D., 1990: Evolutionary relationships among the sections ofAnemone and closely related genera (Ranunculaceae) based on molecular evidence. — Amer. J. Bot77: 137. Abstract.

    Google Scholar 

  • Hudson, K. R., Gardner, R. C., 1988: Organisation of the chloroplast genome of kiwifruit (Actinidia deliciosa). — Curr. Genet.13: 339–342.

    Google Scholar 

  • Janchen, E., 1949: Die systematische Gliederung der Ranunculaceen und Berberidaceen. — Denkschr. Akad. Wiss. Wien, Math.-naturwiss. Kl.108: 1–82.

    Google Scholar 

  • Jansen, R. K., Palmer, J. D., 1987: Chloroplast DNA from lettuce andBarnadesia (Asteraceae): structure, gene localization, and characterization of a large inversion. — Curr. Genet.11: 553–564.

    Google Scholar 

  • —, —, 1988: Phylogenetic implications of chloroplast DNA restriction site variation in theMutisieae (Asteraceae). — Amer. J. Bot.75: 753–766.

    Google Scholar 

  • —, 1990: Phylogenetic analysis of chloroplast DNA restriction site data at higher taxonomic levels: an example from theAsteraceae. — Evolution44: 2089–2099.

    Google Scholar 

  • Jensen, U., 1968: Serologische Beiträge zur Systematik derRanunculaceae. — Bot. Jahrb.88: 269–310.

    Google Scholar 

  • Kishima, Y., Mikami, T., Hirai, A., Sugiura, M., Kinoshita, T., 1987:Beta chloroplast genomes: analysis of fraction I protein and chloroplast DNA variation. — Theor. Appl. Genet.73: 330–336.

    Google Scholar 

  • Kung, S. D., Zhu, Y. S., Shen, G. F., 1982:Nicotiana chloroplast genome III. Chloroplast DNA evolution. — Theor. Appl. Genet.61: 73–79.

    Google Scholar 

  • Langlet, O., 1932: Über Chromosomenverhältnisse und Systematik derRanunculaceae. — Svensk Bot. Tidskr.26: 381–400.

    Google Scholar 

  • Loconte, H., Estes, J. R., 1989: Phylogenetic systematics ofBerberidaceae andRanunculales (Magnoliidae). — Syst. Bot.14: 565–579.

    Google Scholar 

  • Nei, M., Li, W.-H., 1979: Mathematical model for studying genetic variation in terms of restriction endonucleases. — Proc. Natl. Acad. Sci. U.S.A.75: 5269–5273.

    Google Scholar 

  • Ngernprasirtsiri, J., Kobayashi, H., 1990: Application of an efficient strategy with a phage vector for constructing a physical map of the amyloplast genome of sycamore (Acer pseudoplatanus). — Arch. Biochem. Biophysics276: 172–179.

    Google Scholar 

  • Palmer, J. D., 1982: Physical and gene mapping of chloroplast DNA fromAtriplex triangularis andCucumis sativa. — Nucl. Acids Res.10: 1593–1605.

    PubMed  Google Scholar 

  • —, 1986a: Isolation and structural analysis of chloroplast DNA. — Meth. Enzymol.118: 167–186.

    Google Scholar 

  • —, 1986b: Chloroplast DNA and phylogenetic relationships. — InDutta, S. K., (Ed.): DNA systematics, 2, Plants. — Boca Raton, Florida: CRC Press.

    Google Scholar 

  • —, 1990: Plastid chromosomes: structure and evolution. — InBogorad, L., Vasil, I. K., (Eds.): Cell culture and somatic cell genetics of plants, 7, The molecular biology of plastids. — New York: Academic Press.

    Google Scholar 

  • —, 1982: Chloroplast DNA evolution and phylogenetic relationships inLycopersicon. — Proc. Natl. Acad. Sci. U.S.A.79: 5006–5010.

    Google Scholar 

  • —, 1983a: Chloroplast DNA evolution and the origin of amphidiploidBrassica species. — Theor. Appl. Genet.65: 181–189.

    Google Scholar 

  • —, 1983b: Structure and sequence evolution of three legume chloroplast DNAs. — Mol. Gen. Genet.190: 13–19.

    Google Scholar 

  • —, 1985: Chloroplast DNA variation and evolution inPisum: patterns of change and phylogenetic analysis. — Genetics109: 195–213.

    Google Scholar 

  • —, 1988: Chloroplast DNA variation and plant phylogeny. — Ann. Missouri Bot. Gard.75: 1180–1206.

    Google Scholar 

  • Perl-Treves, R., Galun, E., 1985: TheCucumis plastome: physical map, intrageneric variation and phylogenetic relationships. — Theor. Appl. Genet.71: 417–429.

    Google Scholar 

  • Phillips, A. L., 1985: Restriction map and clone bank of tomato plastid DNA. — Curr. Genet.10: 147–152.

    Google Scholar 

  • Ranker, T. A., Soltis, D. E., Soltis, P. S., Gilmartin, A. J., 1990: Subfamilial phylogenetic relationships of theBromeliaceae: evidence from chloroplast DNA restriction site variation. — Syst. Bot.15: 425–434.

    Google Scholar 

  • Rieseberg, L. H., Soltis, D. E., Palmer, J. D., 1988: A molecular reexamination of introgression betweenHelianthus annuus andH. bolanderi (Compositae). — Evolution42: 227–238.

    Google Scholar 

  • Schilling, E. E., Jansen, R. K., 1989: Restriction fragment analysis of chloroplast DNA and the systematics ofViguiera and related genera (Asteraceae: Heliantheae). — Amer. J. Bot.76: 1769–1778.

    Google Scholar 

  • Shinozaki, K. Ohme, M., Tanaka, M., Wakasugi, T., Hayashida, N., Matsubayashi, T., Zaita, N., Chunwongse, J., Obokata, J., Yamaguchi-Shinozaki, K., Ohto, C., Torazawa, K., Meng, B. Y., Sugita, M., Deno, H., Kamogashira, T., Yamada, K., Kusuda, J., Takaiwa, F., Kato, A., Tohdoh, N., Shimada, H., Sugiura, M., 1986: The complete nucleotide sequence of the tobacco chloroplast genome: its gene organization and expression. — EMBO J.5: 2043–2049.

    Google Scholar 

  • Soltis, D. E., Soltis, P. S., 1989: Allopolyploid speciation inTragopogon: insights from chloroplast DNA. — Amer. J. Bot.76: 1119–1124.

    Google Scholar 

  • Sugita, M., Sugiura, M., 1983: A putative gene of tobacco chloroplast coding for ribosomal protein similar toE. coli ribosomal protein S 19. — Nucl. Acids Res.11: 1913–1918.

    PubMed  Google Scholar 

  • Sugiura, M., 1987: Structure and function of the tobacco chloroplast genome. — Bot. Mag. Tokyo100: 407–436.

    Google Scholar 

  • —, 1986: Clone bank of the tobacco (Nicotiana tabacum) chloroplast genome as a set of overlapping restriction endonuclease fragments: mapping of eleven ribosomal protein genes. — Pl. Sci.44: 211–216.

    Google Scholar 

  • Swofford, D. L., 1985: PAUP. Phylogenetic analysis using parsimony, version 2.4.2. Computer package. — Champaign, Illinois: Illinois Nat. Hist. surv.

    Google Scholar 

  • Sytsma, K. J., Gottlieb, L. D., 1986: Chloroplast DNA evolution and phylogenetic relationships inClarkia sect.Peripetasma (Onagraceae). — Evolution40: 1248–1261.

    Google Scholar 

  • —, 1985: Phylogenetics of theLisianthius skinneri (Gentianaceae) species complex in Panama utilizing DNA restriction fragment analysis. — Evolution39: 594–608.

    Google Scholar 

  • —, 1990: Phylogenetics inClarkia (Onagraceae): restriction site mapping of chloroplast DNA. — Syst. Bot.15: 280–295.

    Google Scholar 

  • Tamura, M., 1963a: Morphology, ecology and phylogeny of theRanunculaceae I. — Sci. Rep.11: 115–126.

    Google Scholar 

  • —, 1963b: Morphology, ecology and phylogeny of theRanunculaceae II. — Sci. Rep.12: 141–156.

    Google Scholar 

  • —, 1964: Morphology, ecology and phylogeny of theRanunculaceae III. — Sci. Rep.13: 25–38.

    Google Scholar 

  • —, 1965a: Morphology, ecology and phylogeny of theRanunculaceae IV. — Sci. Rep.14(1): 53–71.

    Google Scholar 

  • —, 1965b: Morphology, ecology and phylogeny of theRanunculaceae V. — Sci. Rep.14(2): 27–48.

    Google Scholar 

  • —, 1966: Morphology, ecology and phylogeny of theRanunculaceae VI. — Sci. Rep.15: 13–35.

    Google Scholar 

  • —, 1967: Morphology, ecology and phylogeny of theRanunculaceae VII. — Sci. Rep.16: 21–43.

    Google Scholar 

  • —, 1968: Morphology, ecology and phylogeny of theRanunculaceae VIII. — Sci. Rep.17: 41–56.

    Google Scholar 

  • Terauchi, R., Terachi, T., Tsunewaki, K., 1989: Physical map of chloroplast DNA of aerial yam,Dioscorea bulbifera L. — Theor. Appl. Genet.78: 1–10.

    Google Scholar 

  • Watrous, L. E., Wheeler, Q. D., 1981: The out-group comparison method of character analysis. — Syst. Zool.30: 1–11.

    Google Scholar 

  • Wendel, J. F., 1989: New World tetraploid cottons contain Old World cytoplasm. — Proc. Natl. Acad. Sci. U.S.A.86: 4132–4136.

    Google Scholar 

  • Willis, J. C., 1985: A dictionary of the flowering plants and ferns. 8th edn. (revised byH. K. Airy Shaw). — Cambridge, New York, New Rochelle, Melbourne, Sydney: Cambridge University Press.

    Google Scholar 

  • Wolfe, K. H., Li, W.-H., Sharp, P. M., 1987: Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs. — Proc. Natl. Acad. Sci. U.S.A.84: 9054–9058.

    PubMed  Google Scholar 

  • Yatskievych, G., Stein, D. B., Gastony, G. J., 1988: Chloroplast DNA evolution and systematics ofPhanerophlebia (Dryopteridaceae) and related fern genera. — Proc. Natl. Acad. Sci. U.S.A.85: 2589–2593.

    Google Scholar 

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Authors and Affiliations

  1. Department of Systematic Botany, University of Lund, Ö. Vallgatan 20, S-223 61, Lund, Sweden

    Jan T. Johansson

  2. Department of Ecology and Evolutionary Biology, University of Connecticut, P.O. Box U-42, 06269-3042, Storrs, CT, USA

    Robert K. Jansen

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  1. Jan T. Johansson
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  2. Robert K. Jansen
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Johansson, J.T., Jansen, R.K. Chloroplast DNA variation among five species ofRanunculaceae: Structure, sequence divergence, and phylogenetic relationships. Pl Syst Evol 178, 9–25 (1991). https://doi.org/10.1007/BF00937979

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