Transfer of genetic material between the chloroplast and nucleus: How is it related to stress in plants?

Annals of Botany

Volumn 103, Issue 4, 2009, Pages 625-633

  Cullis, C A ^a   Vorster, B J ^b   Van Der Vyver, C ^c   Kunert, K J ^b  

^a CASE WESTERN RESERVE UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b UNIVERSITY OF PRETORIA   (South Africa)

^c STELLENBOSCH UNIVERSITY   (South Africa)

Author keywords

DNA transfer; Genome integration; Organelles and nucleus; Stress

Indexed keywords

CHLOROPLAST DNA; PLANT DNA;

CHLOROPLAST; DNA; ENVIRONMENTAL STRESS; GENE EXPRESSION; GENE TRANSFER;

CELL NUCLEUS; CHLOROPLAST; GENETICS; PHYSIOLOGICAL STRESS; PLANT; REVIEW;

CELL NUCLEUS; CHLOROPLASTS; DNA, CHLOROPLAST; DNA, PLANT; PLANTS; STRESS, PHYSIOLOGICAL;

EID: 59849102471     PISSN: 03057364     EISSN: 10958290     Source Type: Journal    
DOI: 10.1093/aob/mcn173     Document Type: Review

References (58)

1. Andersson SG, Karlberg O, Canback B, Kurland CG. 2003. On the origin of mitochondria: a genomics perspective. Philosophical Transactions of the Royal Society London. B Biological Science 358: 165-177.
2. Ankele E, Heberle-Bors E, Pfosser MF, Hofinger BJ. 2005. Searching for mechanisms leading to albino plant formation in cereals. Acta Physiologiae Plantarum 27: 651-665
3. Arabidopsis Genome Initiative. 2000. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408: 796-815
4. Atabekov JG, Dorokhov YL. 1984. Plant virus-specific transport function and resistance of plants to viruses. Advances in Virus Research 29: 313-364
5. Ayliffe MF, Timmis JN. 1992. Plastid DNA sequence homologies in the tobacco nuclear genome. Molecular General Genetics 236: 105-112
6. Bausher MG, Singh ND, Lee S-B, Jansen RK, Daniell H. 2006. The complete genome sequence of Citrus sinensis (L.) Osbeck var. 'Ridge Pineapple': organization and phylogenetic relationships to other angiosperms. BMC Plant Biology 6: 21
7. Bennetzen J, Kellogg EA, 1997. Do plants have a one-way ticket to genomic obesity? The Plant Cell 9: 1509-1514
8. Chumley TW, Palmer JD, Mower JP, Fourade HM, Calie PJ, Boore JL, et al. 2006. The complete genome sequence of Pelargonium x hortorum: organization and evolution of the largest and most highly rearranged chloroplast genome of land plants. Molecular Biology Evolution 23: 2175-2190
9. Chung H-J, Jung JD, Park H-W, Kim J-H, Cha HW, Min SR, et al. 2006. The complete chloroplast genome of Solanum tuberosum and the comparative analysis with Solanaceae species identified the presence of a 241 bp deletion in cultivated potato chloroplast DNA sequence. Plant Cell Reports 25: 1369-1379
10. Cullis CA. 2005. Mechanisms and control of rapid genomic changes in flax. Annals of Botany 95: 201-206
11. Daniell H, Lee S-B, Grevich J, Saki C, Quesada-Vargas T, Guda C et al. 2006. Complete chloroplast genome sequences of Solanum bulbocastanum, Solanum lycopersicum and comparative analysis with other Solanaceae genomes. Theoretical Applied Genetics 112: 1503-1518
12. Day A, Ellis THN. 1985. Deleted forms of plastid DNA in albino plants from cereal anther culture. Current Genetics 9: 671-678
13. Farrelly F, Butow RA. 1983. Rearranged mitochondrial genes in the yeast nuclear genome. Nature 301: 296-301
14. Gilbertson RL, Sudarshana M, Jiang H, Rojas MR, Lucas WJ. 2003. Limitations on geminivirus genome size imposed by plasmodesmata and virus-encoded movement protein: insights into DNA trafficking. The Plant Cell 15: 2578-2591
15. Herrmann RG. 1997. Eukaryotism, towards a new interpretation. In: Schenk HEA, Herrmann RG, Jeon KW, Muller NE, Schwemmler W eds. Eukaryotism and symbiosis. Springer: Vienna, 73-118
16. Hiratsuka J, Shimada H, Whittier R, Ishibashi T, Sakamoto M, Mori M, et al. 1989. The complete sequence of the rice (Oryza sativa) chloroplast genome: intermolecular recombination between distinct tRNA genes accounts for a major plastid DNA inversion during the evolution of the cereals. Molecular and General Genetics 217: 185-194
17. Huang CY, Ayliffe MA, Timmis JN. 2003. Direct measurement of the transfer rate of chloroplast DNA into the nucleus. Nature 422: 72-76
18. International Rice Genome Sequencing Project. 2005. The map-based sequence of the rice genome. Nature 436: 793-800.
19. Jackson D. 2002. Double labeling of KNOTTED1 mRNA and protein reveals multiple potential sites of protein trafficking in the shoot apex. Plant Physiology 129: 1423-1429
20. Jackson D, Hake S. 1997. Morphogenesis on the move: cell-to-cell trafficking of plant regulatory proteins. Current Opinion in Genetics and Development 7: 495-500
21. Kato T, Kaneko T, Sato S, Nakumura Y, Tabata S. 2000. Complete structure of the chloroplast genome of a legume, Lotus japonicus. DNA Research 7: 323-330
22. Kim JY, Yuan Z, Jackson D. 2003. Developmental regulation and significance of KNOX protein trafficking in Arabidopsis. Development 130: 4351-4362
23. Kim JY, Rim Y, Wang L, Jackson D. 2005. A novel cell-to-cell trafficking assay indicates that the KNOX homeodomain is necessary and sufficient for intercellular protein and mRNA trafficking. Genes and Development 19: 788-793
24. Kugita M, Kaneko A, Yamamoto Y, Takeya Y, Matsumoto T, Yoshinaga K. 2003. The complete nucleotide sequence of the hornwort (Anthoceros formosae) chloroplast genome: insight into the earliest land plants. Nucleic Acids Research 31: 716-721
25. Lee S-B, Kaittanis C, Jansen RK, Hostetler JB, Tallon LJ, Town CD, Daniell H. 2006. The complete chloroplast genome sequence of Gossypium hirsutum: organization and phylogenetic relationships to other angiosperms. BMC Genomics 7: 61
26. Lexer C, Fay MF. 2005. Adaptation to environmental stress: a rare or frequent driver of speciation? Journal of Evolutionary Biology 18: 893-900
27. Linacero R, Alves EF, Vázquez AM. 2000. Hot spots of DNA instability revealed through the study of somaclonal variation in rye. Theoretical and Applied Genetics 100: 506-511
28. Lisitsyn N. 1995. Representational difference analysis: finding the differences between genomes. Trends in Genetics 11: 303-307
29. Lucas WJ. 1995. Plasmodesmata-intercellular channels for macromolecular transport in plants. Current Opinion in Cell Biology 7: 673-680
30. Lucas WJ. 2006. Plant viral movement proteins: agents for cell-to-cell traf-ficking of viral genomes. Virology 344: 169-184
31. Lukens LN, Zhan S. 2007. The plant genome's methylation status and response to stress: implications for plant improvement. Current Opinion in Plant Biology 10: 317-322
32. Madlung A, Comai L. 2004. The effect of stress on genome regulation and structure. Annals of Botany 94: 481-495
33. Maier RM, Neckermann K, Igloi GL, Kossel H. 1995. Complete sequence of the maize chloroplast genome: gene content, hotspots of divergence and fine tuning of genetic information by transcript editing. Journal Molecular Biology 251: 614-628
34. Martin W. 2003. Gene transfer from the organelles to the nucleus: frequent and in big chunks. Proceedings of the National Academy of Sciences of the USA 100: 8612-8614
35. Martin W, Rujan T, Richly E, Hansen A, Cornelsen S, Lins T, et al. 2002. Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus. Proceedings of the National Academy of Sciences of the USA 99: 12246-12251
36. Matsuo M, Ito Y, Yamauchi R, Obokata J. 2005. The rice nuclear genome continuously integrates, shuffles, and eliminates the chloroplast genome to cause chloroplast-nuclear genome DNA flux. The Plant Cell 17: 665-675
37. Noueiry AO, Lucas WJ, Gilbertson RL. 1994. Two proteins of a plant DNA virus coordinate nuclear and plasmodesmal transport. Cell 76: 925-932
38. Pitzscheke A, Forzani C, Heribert H. 2006. Reactive oxygen species signaling in plants. Antioxidants & Redox Signalling 8: 1757-1764
39. Richly E, Leister D. 2004. An improved prediction of chloroplast proteins reveals diversities and commonalities in the chloroplast proteomes of Arabidopsis and rice. Gene 329: 1-16
40. Rogers MB, Gilson PR, Su V, McFadden GI, Keeling PJ. 2007. The complete chloroplast genome of the Chlorarachniophyte Bigelowiella natans: evidence for independent origins of chlorarachniophyte and euglenid secondary endosymbionts. Molecular Biology Evolution 24: 54-62
41. Ruhlman T, Lee S-B, Jansen RK, Hostetler JB, Tallon LJ, Town CD et al. 2006. Complete plastid genome sequence of Daucus carota: implications for biotechnology and phylogeny of angiosperms. BMC Genomics 7: 222
42. Saki C, Lee S-B, Daniell H, Wood TC, Tomkins J, Kim H-G, Jansen RK. 2005. Complete chloroplast genome sequence of Glycine max and comparative analysis with other legume genomes Plant Molecular Biology 59: 309-322
43. Saki C, Lee S-B, Fjellheim S, Guda C, Jansen RK, Lou H, et al. 2007. Compete chloroplast genome sequences of Hordeum vulgare, Sorghum bicolor and Agrostis stolonifera, and comparative analysis with other grass genomes. Theoretical and Applied Genetics 115: 571-590
44. Samson N, Bausher MG, Lee S-B, Jansen RK, Daniell H. 2007. The complete nucleotide sequence of the coffee (Coffea arabica L.) chloroplast genome: organization and implications of biotechnology and the phylogenetic relationship amongst angiosperms. Plant Biotechnology Journal 5: 339-353
45. Sanderfoot AA, Lazarowitz SG. 1995. Cooperation in viral movement - the geminivirus BL1 movement protein interacts with BR1 and redirects it from the nucleus to the cell periphery. The Plant Cell 7: 1185-1194
46. Sanderfoot AA, Lazarowitz SG. 1996. Getting it together in plant virus movement: cooperative interactions between bipartite geminivirus movement proteins. Trends in Cell Biology 6: 353-358
47. Sato S, Nakamura Y, Kaneko T, Asamizu E, Tabata S. 1999. Complete structure of the chloroplast genome of Arabidopsis thaliana. DNA Research 6: 283-290
48. Scott NS, Timmis JN. 1984. Homologies between nuclear and plastid DNA in spinach. Theoretical and Applied Genetics 67: 279-288
49. Shahmuradov IA, Akbarova YY, Solovyev VV, Aliye JA. 2003. Abundance of plastid DNA insertions in nuclear genomes of rice and Arabidopsis. Plant Molecular Biology 52: 923-934
50. Steane DA. 2005. Complete nucleotide sequence of the chloroplast genome from the tasmainian blue gum, Eucalyptus globules (Myrtaceae). DNA Research 12: 215-220
51. Stegemann S, Hartmann S, Ruf S, Bock R. 2003. High-frequency gene transfer from the chloroplast to the nucleus. Proceedings of the National Academy of Sciences of the USA 100: 8828-8833
52. Sugiura C, Kobayashi Y, Aoki S, Sugita C, Sugita M. 2003. Complete chloroplast DNA sequence of the moss Physcomitrella patens: evidence for the loss and the relocation of rpoA from the chloroplast to the nucleus. Nucleic Acids Research 31: 5324-5331
53. Sun CW, Callis J. 1993. Recent stable insertion of mitochondrial DNA into and Arabidopsis polyubiquitin gene by nonhomologous recombination. The Plant Cell 5: 97-107
54. Thorsness M, Fox TD. 1990. Nuclear mutations in Saccharomyces cerevisiae that affect the escape of DNA from mitochondria to the nucleus. Genetics 134: 21-28
55. Timmis JN, Ayliffe MA, Huang CY, Martin W. 2004. Endosymbiotic gene transfer: organellar genomes forge eukaryotic chromosomes. Nature Reviews Genetics 5: 123-135
56. Vorster J. 2008. Comparative whole genome analysis detects similarities between plants and microbes. PhD Thesis, University of Pretoria, Pretoria, South Africa
57. van der Vyver C. 2003. Stress-induced genome changes in plants. PhD Thesis, University of Pretoria, Pretoria, South Africa
58. Woodson JD, Chory J. 2008. Coordination of gene expression between organellar and nuclear genomes. Nature Reviews Genetics 9: 383-395