Nuclear and cytoplasmic variation within and between Eurasian Larix (Pinaceae) species

American Journal of Botany

Volumn 90, Issue 8, 2003, Pages 1113-1123

  Semerikov, Vladimir L ^a,b   Lascoux, Martin ^a  

^a UPPSALA UNIVERSITY   (Sweden)

^b INSTITUTE OF PLANT AND ANIMAL ECOLOGY   (Russian Federation)

Author keywords

AFLP; cpDNA; Hybridization; Larix; mtDNA; Phylogeography; Pinaceae

Indexed keywords

GENETIC VARIATION; HYBRIDIZATION; INTERSPECIFIC VARIATION; INTRASPECIFIC VARIATION; MITOCHONDRIAL DNA; PHYLOGEOGRAPHY;

EURASIA;

EMBRYOPHYTA; LARIX; LARIX DECIDUA; LARIX GMELINII; LARIX GMELINII VAR. OLGENSIS; LARIX KAEMPFERI; LARIX OLGENSIS; LARIX SIBIRICA; PINACEAE; PINUS SYLVESTRIS;

EID: 0042928218     PISSN: 00029122     EISSN: None     Source Type: Journal    
DOI: 10.3732/ajb.90.8.1113     Document Type: Article

References (57)

1. ABBOTT, R. J., L. C. SMITH, R. I. MILNE, R. M. M. CRAWFORD, K. WOLFF, AND J. BALFOUR. 2000. Molecular analysis of plant migration and refugia in the Arctic. Science 289: 1343-1346.
2. BANDELT, H.-J., P. FORSTER, AND A. RÖHL. 1999. Median-joining networks for inferring intraspecific phylogenies. Molecular Biology and Evolution 16: 37-48.
3. BANDELT, H.-J., P. FORSTER. B. C. SYKES, AND M. B. RICHARDS. 1995. Mitochondrial portraits of human populations. Genetics 141: 743-753.
4. BROOKFIELD, J. F. Y. 1997. Importance of ancestral DNA ages. Nature 388: 134.
5. BRUNS, D., AND J. N. OWENS. 2000. Western white pine (Pinus monticola Dougl.) reproduction: II. Fertilisation and cytoplasmic inheritance. Sexual Plant Reproduction 13: 75-84.
6. DE KNIFF, P., F. DENKERS, N. D. VAN SWELM, AND M. KUIPER. 2001. Genetic affinities within the herring gull Larus argentatus assemblage revealed by AFLP genotyping. Journal of Molecular Evolution 52: 85-93.
7. DEMESURE, B., N. SODZI, AND R. J. PETIT. 1995. A set of universal primers for amplification of polymorphic noncoding regions of mitochondrial and chloroplast DNA in plants. Molecular Ecology 4: 129-131.
8. DEVERNO, L. L., P. J. CHAREST, AND L. BONEN. 1993. Inheritance of mitochondrial DNA in the conifer Larix. Theoretical and Applied Genetics 86: 383-388.
9. DONNELLY, P. 1999. The coalescent and microsatellite variability. In D. B. Goldstein and C. Schlötterer [eds.], Microsatellites: evolution and applications, 116-128. Oxford University Press, Oxford, UK.
10. DONNELLY, P., AND S. TAVARÉ. 1995. Coalescent and genealogical structure under neutrality. Annual Review of Genetics 29: 401-421.
11. DUMOLIN-LAPEGUE, S., M. H. PEMONGE, AND R. J. PETIT. 1997. An enlarged set of consensus primers for the study of organelle DNA in plants. Molecular Ecology 6: 393-397.
12. DVORNYK, V., A. SIRVIO, M. MIKKONEN, AND O. SAVOLAINEN. 2002. Low nucleotide diversity at the pal1 locus in the widely distributed Pinus sylvestris. Molecular Biology and Evolution 19: 179-188.
13. DYLIS, N. W. 1961. Larch of Eastern Siberia and Far East. Academy of Sciences of USSR, Moscow, Soviet Union (in Russian).
14. FAY, J. C., AND C. I. WU 1999. A human population bottleneck can account for the discordance between patterns of mitochondrial versus nuclear DNA variation. Molecular Biology and Evolution 16: 1003-1005.
15. GIANNASI, N., R. S. THORPE, ND A. MALHOTRA. 2001. The use of amplified fragment length polymorphism in determining species trees at fine taxonomic levels: analysis of a medically important snake, Trimeresurus albolabris. Molecular Ecology 10: 419-426.
16. GUO, F.L., S. Y. HU, S. X. XU, AND Z. F. YUAN. 2000. Cytological mechanism of cytoplasmic inheritance in Pinus tabulaeformis. II. Transmission of male and female organelles during fertilization and proembryo development. Acta Botanica Sinica 42: 341-352.
17. HEWITT, G. 2000. The genetic legacy of the Quaternary ice ages. Nature 405: 907-913.
18. HORIUCHI, K., K. MINOURA, K. HOSHINO, T. ODA, T. NAKAMURA, AND T. KAWAI. 2000. Palaeoenvironmental history of Lake Baikal during the last 23000 years. Palaeogeography, Palaeoclimatology, Palaeoecology 157: 95-108.
19. HULTÉN, E. 1937. Outline of the history of arctic and boreal biota during the Quaternary Period. Bokförlags Aktiebolaget Thule, Stockholm, Sweden.
20. INNAN, H., R. TERAUCHI, G. KAHL, AND F. TAJIMA. 1999. A method for estimating nucleotide diversity from AFLP data. Genetics 151: 1157-1164.
21. KINGMAN, J. F. C. 1982. The coalescent. Stochastic Processes and Applications 13: 235-248.
22. KRUKLIS, M. V., AND L. I. MILYUTIN. 1977. Larix czekanovskii. Nauka, Moscow, Soviet Union (in Russian).
23. LASER, B., S. MOHR, W. ODENBACH, G. OETTLER, AND U. KUCK. 1997. Parental and novel copies of the mitochondrial of 25 gene in the hybrid crop-plant Triticale: predominant transcriptional expression of the maternal gene copy. Current Genetics 32: 337-347.
24. LATTA, R. G., Y. B. LINHART, D. FLECK, AND M. ELLIOT. 1998. Direct and indirect estimates of seed versus pollen movement within a population of ponderosa pine. Evolution 52: 61-67.
25. LATTA, R. G., AND J. B. MITTON. 1997. A comparison of population differentiation across four classes of gene marker in limber pine (Pinus flexilis James). Genetics 146: 1153-1163.
26. LATTA, R. G., AND J. B. MITTON. 1999. Historical separation and present gene flow through a zone of secondary contact in ponderosa pine. Evolution 53: 769-776.
27. MARSHALL, H. D., C. NEWTON, AND K. RITLAND. 2002. Chloroplast phylogeography and evolution of highly polymorphic microsatellites in lodgepole pine (Pinus contorta). Theoretical and Applied Genetics 104: 367-378.
28. MITTON, J. B., B. R. KREISER, AND R. G. LATTA. 2000. Glacial refugia of limber pine (Pinus flexilis James) inferred from the population structure of mitochondrial DNA. Molecular Ecology 9: 91-97.
29. NEALE, D. B., N. C. WHEELER, AND R. W. ALLARD. 1986. Paternal inheritance of chloroplast DNA in Douglas-fir. Canadian Journal of Forest Research 16: 1152-1154.
30. OSTROWSKA, E., M. MURALITHARAN, S. CHANDLER, P. VOLKER, S. HETHERINGTON, AND F. DUNSHEA. 1998. Optimizing conditions for DNA isolation from Pinus radiata. In Vitro Cellular and Developmental Biology - Plant 34: 108-111.
31. PALMER, J. D. 1992. Mitochondrial DNA in plant systematics: applications and limitations. In P. S. Soltis, D. E. Soltis, and J. J. Doyle [eds.], Molecular systematics of plants, 36-49. Chapman & Hall, New York, New York, USA.
32. PARDUCCI, L., AND A. E. SZMIDT. 1999. PCR-RFLP analysis of cpDNA in the genus Abies. Theoretical and Applied Genetics 98: 802-808.
33. PETIT, R. J., R. BIALOZYT, S. BREWER, R. CHEDDADI, AND B. COMPS. 2001. From spatial patterns of genetic diversity to postglacial migration processes in forest trees. In J. Silvertown and J. Antonovics [eds.], Integrating ecology and evolution in a spatial context, 295-318. Blackwell Science, Oxford, UK.
34. PRENTICE, I. C., D. JOLLY, AND BIOME 6000 PARTICIPANTS. 2000. Mid-Holocene and glacial-maximum vegetation geography of the northern continents and Africa. Journal of Biogeography 27: 507-519.
35. PRITCHARD, J. K., M. STEPHENS, AND P. DONNELLY. 2000. Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
36. PROVAN, J., N. SORANZO, N. J. WILSON, D. B. GOLDSTEIN, AND W. POWELL. 1999. A low mutation rate for chloroplast microsatellites. Genetics 153: 943-947.
37. ROHLF, F. J. 1998. NTSYS-pc: numerical taxonomy and multivariate analysis system. Exeter, New York, New York, USA.
38. ROSENBERG, N. A., AND M. NORDBORG. 2002. Genealogical trees, coalescent theory and the analysis of genetic polymorphisms. Nature Reviews in Genetics 3: 380-390.
39. SAMBROOK, J., E. F. FRITSCH, AND T. MANIATIS. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, USA.
40. SAVILE, D. B. O. 1972. Arctic adaptations in plants. Canadian Department of Agriculture Monographs 6: 1-81.
41. SCHNEIDER, S., D. ROESSLI, AND L. EXCOFFIER. 2000. Arlequin v.2.000. A software for population genetic data analysis. Genetics and Biometry Laboratory, Department of Ecology and Anthropology, University of Geneva, Geneva, Switzerland.
42. SEMERIKOV, V. L., AND M. LASCOUX. 1999. Genetic relationships among Eurasian and American Larix species based on allozymes. Heredity 83: 62-70.
43. SEMERIKOV, V. L., H. ZHANG, M. SUN, AND M. LASCOUX. 2003. Differentiation of the Larix genus: conflicting phylogenies from nuclear ITS sequences and chloroplast DNA. Molecular Phylogenetics and Evolution 11: 173-184.
44. SHARBEL, T. F., B. HAUBOLD, AND T. MITCHELL-ULDS. 2000. Genetic isolation by distance in Arabidopsis thaliana: biogeography and postglacial colonization of Europe. Molecular Ecology 9: 2109-2118.
45. SOLTIS, D. E., AND P. S. SOLTIS. 1999. Choosing an approach and an appropriate gene for phylogenetic analysis. In D. E. Soltis, P. S. Soltis, and J. J. Doyle [eds.], Molecular systematics of plants II, 1-42. Kluwer Academic, Dordrecht, Netherlands.
46. SPERISEN, C., U. BUCHLER, F. GUGERLI, G. MATYAS, T. GEBUREK, AND G. G. VENDRAMIN. 2001. Tandem repeats in plant mitochondrial genomes: application to the analysis of population differentiation in the conifer Norway spruce. Molecular Ecology 10: 257-263.
47. TABERLET, P., L. GEILLY, G. PAUTOU, AND J. BOUVET. 1991. Universal primers for amplification of 3 noncoding regions of chloroplast DNA. Plant Molecular Biology 17: 1105-1109.
48. TABERLET, P., L. FUMAGALLI, A. G. WUST-SAUCY, AND J. F. COSSON. 1998. Comparative phylogeography and postglacial colonization routes in Europe. Molecular Ecology 1: 453-464.
49. TARASOV, P. E., ET AL. 2000. Last glacial maximum biomes reconstructed from pollen and plant macrofossil data from northern Eurasia. Journal of Biogeography 27: 609-620.
50. TSUMURA, Y., AND Y. SUYAMA. 1998. Differentiation of mitochondrial DNA polymorphisms in populations of five Japanese Abies species. Evolution 52: 1031-1042.
51. VEKEMANS, X., T. BEAUWENS, M. LEMAIRE, AND I. ROLDAN-RUIZ. 2002. Data from amplified fragment polymorphism (AFLP) markers show indication of size homoplasy and of relationship between degree of homoplasy and fragment size. Molecular Ecology 11: 139-151.
52. VENDRAMIN, G. G., M. ANZIDEI, A. MADAGHIELE, C. SPERISEN, AND G. BUCCI. 2000. Chloroplast microsatellite analysis reveals the presence of population subdivision in Norway spruce (Picea abies K.). Genome 43: 68-78.
53. VENDRAMIN, G. G., L. LELLI, P. ROSSI, AND M. MORGANTE. 1996. A set of primers for the amplification of 20 chloroplast microsatellites in Pinacease. Molecular Ecology 5: 595-598.
54. VOS, P., R. HOGERS, M. BLEEKER, M. REIJANS, T. VAN DER LEE, M. HORNES, A. FRIJTERS, J. POT, J. PELEMAN, M. KUIPER, AND M. ZABEAU. 1995. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research 23: 4407-4414.
55. WAGNER, D. B., G. R. FURNIER, M. A. SAGHAIMAROOF, S. M. WILLIAMS, B. P. DANCICK, AND R. W. ALLARD. 1987. Chloroplast DNA polymorphisms in lodgepole and Jack pines and their hybrids. Proceedings of the National Academy of Sciences, USA 84: 2097-2100.
56. WILSON, I. J., AND D. J. BALDING. 1998. Genealogical inference from microsatellite data. Genetics 150: 499-510.
57. WU J., K. V. KRUTOVSKII, AND S. H. STRAUSS. 1998. Abundant mitochondrial genome diversity, population differentiation and convergent evolution in pines. Genetics 150: 1605-1614.