Genome evolution among cruciferous plants: A lecture from the comparison of the genetic maps of three diploid species - Capsella rubella, Arabidopsis lyrata subsp. petraea, and A. thaliana

American Journal of Botany

Volumn 92, Issue 4, 2005, Pages 761-767

  Koch, Marcus A ^a   Kiefer, Markus ^a  

^a UNIVERSITY OF HEIDELBERG   (Germany)

Author keywords

Arabidopsis lyrata subsp. petraea; Arabidopsis thaliana; Brassicaceae; Capsella rubella; Cardaminopsis petraea; Comparative genomics; Genetic maps; Genome evolution

Indexed keywords

EVOLUTION; GENOME;

ARABIDOPSIS LYRATA; ARABIDOPSIS LYRATA SUBSP. PETRAEA; ARABIDOPSIS THALIANA; BRASSICA; BRASSICACEAE; CAPSELLA RUBELLA; MYA;

EID: 16244366488     PISSN: 00029122     EISSN: None     Source Type: Journal    
DOI: 10.3732/ajb.92.4.761     Document Type: Article

References (52)

1. ACARKAN, A., M. ROßBERG, M. KOCH, AND R. SCHMIDT. 2000. Comparative genome analysis reveals extensive conservation of genome organisation for Arabidopsis thaliana and Capsella rubella. Plant Journal 23: 55-62.
2. AL-SHEHBAZ, I. A. 1984. The tribes of Cruciferae (Brassicaceae) in the southeastern United States. Journal of the Arnold Arboretum 65: 343-373.
3. APPEL, O., AND I. A. AL-SHEHBAZ. 2003. Cruciferae. In K. Kubitzki and C. Bayer [eds.], The families and genera of vascular plants, vol. 5, 75-174. Springer-Verlag, Berlin, Germany.
4. ARABIDOPSIS GENOME INITIATIVE. 2000. Analysis of the genome sequences of the flowering plant Arabidopsis thaliana. Nature 408: 796-815.
5. AXELLSON, T., C. M. BOWMAN, A. G. SHARPE, D. J. LYDIATE, AND U. LAGERCRANTZ. 2000. Amphidiploid Brassica juncea contains conserved progenitor genomes. Genome 43: 679-688.
6. BABULA, D., M. KACZMAREK, A. BARAKAT, M. DELSENY, C. F. QUIROS, AND J. SADOWSKI. 2003. Chromosomal mapping of Brassica oleracea based on ESTs from Arabidopsis thaliana: complexity of the comparative map. Molecular Genetics and Genomics 268: 656-665.
7. BESCHORNER, M., S. I. WARWICK, AND D. J. LYDIATE. 1999. Interspecific transfer of improved water use efficiency from Moricandia into Brassica. In N. Wratten and P. A. Salisbury [eds.], Proceedings of the 10th International Rapeseed Congress, The Regional Institute Ltd., Canberra, Australia, contribution no. 83 (available at website, http://www.regional.org.au/au/gcirc/) .
8. BETT, K. E., AND D. J. LYDIATE. 2003. Genetic analysis and genome mapping in Raphanus. Genome 46: 423-430.
9. BETT, K. E., AND D. J. LYDIATE. 2004. Mapping and characterization of loci controlling the restoration of male fertility in Ogura CMS radish. Molecular Breeding 13: 125-133.
10. BOIVIN, K., A. ACARKAN, R.-S. MBULU, O. CLARENZ, AND R. SCHMIDT. 2004. The Arabidopsis genome sequence as a tool for genome analysis in Brassicaceae: a comparison of the Arabidopsis and Capsella rubella genomes. Plant Physiology 135: 735-744.
11. BURKE, J. M., Z. LAI, M. SALMASO, T. NAKAZATO, S. TANG, A. HEESACKER, S. J. KNAPP, AND L. RIESEBERG. 2004. Comparative mapping and rapid karyotypic evolution in the genus Helianthus. Genetics 167: 449-457.
12. CAVELL, A. C., D. J. LYDIATE, I. A. P. PARKIN, C. DEAN, AND M. TRICK. 1998. Colinearity between a 30-centimorgan segment of Arabidopsis thaliana chromosome 4 and duplicated regions within the Brassica napus genome. Genome 41: 62-69.
13. DOBEŠ, C., AND E. VITEK. 2000. Documented chromosome checklist of Austrian vascular plants. Museum of Natural History, Vienna, Austria.
14. GRANT, M. R., J. M. MCDOWELL, A. G. SHARPE, Z. M. DE TORRES, D. J. LYDIATE, AND J. L. DANGL. 1998. Independent deletions of a pathogen-resistance gene in Brassica and Arabidopsis. Proceedings of the National Academy of Sciences, USA 95: 15843-15848.
15. GRANT, M. R., P. CREGAN, AND R. C. SHOEMAKER. 2000. Genome organization in dicots: genome duplication in Arabidopsis and synteny between soybean and Arabidopsis. Proceedings of the National Academy of Sciences, USA 97: 4168-4173.
16. HALL, J. C., K. J. SYTSMA, AND H. H. ILTIS. 2002. Phylogeny of Capparaceae and Brassicaceae based on chloroplast sequence data. American Journal of Botany 89: 1826-1842.
17. HAYEK, A. 1911. Entwurf eines Cruciferensystems auf phylogenetischer Grundlage. Beihefte des Botanischen Centralblattes 27: 127-335.
18. HURKA, H., S. FREUNDNER, A. H. D. BROWN, AND U. PLANTHOLT. 1989. Aspartate aminotransferase isozymes in the genus Capsella (Brassicaceae): subcellular location, gene duplication, and polymorphism. Biochemical Genetics 27: 77-90.
19. HURKA, H., AND B. NEUFFER. 1997. Evolutionary processes in the genus Capsella (Brassicaceae). Plant Systematics and Evolution 206: 295-316.
20. JANCHEN, E. 1942. Das System der Cruciferen. Österreichische Botanische Zeitschrift 91: 1-28.
21. KOCH, M., J. BISHOP, AND T. MITCHELL-OLDS. 1999. Molecular systematics of Arabidopsis and Arabis. Plant Biology 1: 529-537.
22. KOCH, M., B. HAUBOLD, AND T. MITCHELL-OLDS. 2000. Comparative evolutionary analysis of chalcone synthase and alcohol dehydrogenase loci in Arabidopsis, Arabis, and related genera (Brassicaceae). Molecular Biology and Evolution 17: 1483-1498.
23. KOCH, M., B. HAUBOLD, AND T. MITCHELL-OLDS. 2001. Molecular systematics of the Brassicaceae: evidence from coding plastidic matK and nuclear chs sequences. American Journal of Botany 88: 534-544.
24. KOCH, M. 2003. Molecular phylogenetics, evolution and population biology in the Brassicaceae. In A. K. Sharma and A. Sharma [eds.], Plant genome and evolution, vol. 1, Phanerogames, 1-35. Science Publishers, Enfield, New Hampshire, USA.
25. KOCH, M., I. AL-SHEHBAZ, AND K. MUMMENHOFF. 2003. Molecular systematics, evolution, and population biology in the mustard family (Brassicaceae). Annals of the Missouri Botanical Garden 90: 151-171.
26. KOCH, M. A., C. DOBEŠ, M. MATSCHINGER, W. BLEEKER, J. VOGEL, M. KIEFER, AND T. MITCHELL-OLDS. In press. Evolution of the trnF(GAA) gene in Arabidopsis relatives and the Brassicaceae family: monophyletic origin and subsequent diversification of a plastidic pseudogene. Molecular Biology and Evolution.
27. KOWALSKI, S. P., T. H. LAN, K. A. FELDMANN, AND A. H. PATERSON. 1994. Comparative mapping of Arabidopsis thaliana and Brassica oleracea chromosomes reveals islands of conserved organization. Genetics 138: 499-510.
28. KUITTINEN, H., A. DE HAAN, C. VOGL, S. OIKARINEN, J. LEPPALA, T. MITCHELL-OLDS, M. KOCH, C. LANGLEY, AND O. SAVOLAINEN. 2004. Comparing the maps of close relatives Arabidopsis lyrata and Arabidopsis thaliana. Genetics 168: 1575-1584.
29. LAGERCRANTZ, U., AND D. LYDIATE. 1996. Comparative genome mapping in Brassica. Genetics 144: 1903-1910.
30. LAGERCRANTZ, U. 1998. Comparative mapping between Arabidopsis thaliana and Brassica nigra indicates that Brassica genomes have evolved through extensive genome replication accompanied by chromosome fusions and frequent rearrangements. Genetics 150: 1217-1228.
31. LAN, T. H., T. A. DELMONTE, K. P. REISCHMANN, J. HYMAN, S. P. KOWALSKI, J. MCFERSON, S. KRESOVICH, AND A. H. PATERSON. 2000. An EST-enriched comparative map of Brassica oleracea and Arabidopsis thaliana. Genome Research 10: 776-788.
32. LIVINGSTONE, K., AND L. RIESEBERG. 2004. Chromosomal evolution and speciation: a recombination-based approach. New Phytologist 161: 107-112.
33. LUKENS, L., F. ZOU, D. LYDIATE, I. PARKIN, AND T. OSBORN. 2003. Comparison of a Brassica oleracea genetic map with the genome of Arabidopsis thaliana. Genetics 164: 359-372.
34. LYSAK, M. A., A. PECINKA, AND I. SCHUBERT. 2003. Recent progress in chromosome painting of Arabidopsis and related species. Chromosome Research 11: 195-204.
35. LYSAK, M. A., M. A. KOCH, A. PECINKA, AND I. SCHUBERT. In press. Chromosome triplication found across the tribe Brassiceae. Genome Research.
36. MITCHELL-OLDS, T., I. AL-SHEHBAZ, M. KOCH, AND T. SHARBEL. 2004. Crucifer evolution in the post-genomic era. In R. Henry [ed.], Diversity and evolution of plants, 119-137. CABI Publishing, Wallingford, UK.
37. O'KANE, S. L. JR., AND I. A. AL-SHEHBAZ. 1997. A synopsis of Arabidopsis (Brassicaeae). Novon 7: 323-327.
38. O'KANE, S. L. JR., AND I. A. AL-SHEHBAZ. 2003. Phylogenetic position and generic limits of Arabidopsis (Brassicaceae) based on sequences of nuclear ribosomal DNA. Annals of the Missouri Botanical Garden 90: 603-612.
39. O'NEILL, C. M., AND I. BANCROFT. 2000. Comparative physical mapping of segments of the genome of Brassica oleracea var. alboglabra that are homoeologous to sequenced regions of chromosome 4 and 5 of Arabidopsis thaliana. Plant Journal 23: 233-243.
40. PATERSON, A. H., J. E. BOWERS, M. D. BUROW, X. DRAYE, C. G. ELSIK, C.-X. JIANG, C. S. KATSAR, T.-H. LAN, Y.-R. LIN, R. MING, AND R. J. WRIGHT. 2000. Comparative genomis of plant chromosomes. Plant Cell 12: 1523-1539.
41. PRANTL, K. 1891. Cruciferae. In A. Engler and K. Prantl [eds.], Die natürlichen Pflanzenfamilien, vol. III, part 2, 145-206. Verlag Wilhelm Engelmann, Leipzig, Germany.
42. RIESEBERG, L. H., AND C. A. BUERKLE. 2002. Genetic mapping in hybrid zones. American Naturalist 159 (Supplement 3): S36-S50.
43. QUIROS, C. F., F. GRELLET, J. SADOVSKI, T. SUZUKI, G. LI, AND T. WROBLEWSKI. 2001. Arabidopsis and Brassica comparative genomics: sequence, structure and gene content in the ABII-Rps2-Ck1 chromosomal segment and related regions. Genetics 157: 1321-1330.
44. SCHULZ, O. E. 1936. Cruciferae. In A. Engler and K. Prantl [eds.], Die natürlichen Pflanzenfamilien, vol. 17B, 227-658. Verlag Wilhelm Engelmann, Leipzig, Germany.
45. U. N. 1935. Genome analysis in Brassica with special reference to the experimental formation of B. napus and peculiar mode of fertilization. Japanese Journal of Botany 7: 389-452.
46. VAN TREUREN, R., H. KUITTINEN, K. KÄRKKÄINEN, E. BAENA-GONZALEZ, AND O. SAVOLAINEN. 1997. Evolution of microsatellites in Arabis petraea and Arabis lyrata, outcrossing relatives of Arabidopsis thaliana. Molecular Biology and Evolution 14: 220-229.
47. WARWICK, S. I., AND L. D. BLACK. 1991. Molecular systematics of Brassica and allied genera (Subtribe Brassicinae, Brassiceae) - chloroplast genome and cytodeme congruence. Theoretical and Applied Genetics 82: 81-92.
48. WARWICK, S. I., L. D. BLACK, AND I. AGUINAGALDE. 1992. Molecular systematics of Brassica and allied genera (Subtribe Brassicinae, Brassiceae) - chloroplast DNA variation in the genus Diplotaxis. Theoretical and Applied Genetics 83: 839-850.
49. WARWICK, S. I., AND L. D. BLACK. 1993. Molecular relationships in subtribe Brassicinae (Cruciferae, tribe Brassiceae). Canadian Journal of Botany 71: 906-918.
50. WARWICK, S. I., AND L. D. BLACK. 1997. Molecular phylogenies from theory to application in Brassica and allies (Tribe Brassiceae, Brassicaceae). Opera Botanica 132: 159-168.
51. WARWICK, S. I., AND C. SAUDER. In press. Phylogeny of tribe Brassiceae (Brassicaceae) based on chloroplast restriction site polymorphisms and nuclear ribosomal internal transcribed spacer (ITS) and chloroplast trnL intron sequences. Canadian Journal of Botany.
52. YANG, Y. W., K. N. LAI, P. Y. TAI, D. P. MA, AND W. H. LI. 1999. Molecular phylogenetic studies of Brassica, Rorippa, Arabidopsis and allied genera based on the internal transcribed spacer region of 18S-25S rDNA. Molecular Phylogenetics and Evolution 13: 455-462.