Catastrophic chromosomal restructuring during genome elimination in plants

eLife

Volumn 4, Issue MAY, 2015, Pages

  Tan, Ek Han ^a   Henry, Isabelle M ^a   Ravi, Maruthachalam ^b   Bradnam, Keith R ^a   Mandakova, Terezie ^c   Marimuthu, Mohan P A ^a   Korf, Ian ^a   Lysak, Martin A ^c   Comai, Luca ^a   Chan, Simon W L ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b INDIAN INSTITUTE OF SCIENCE EDUCATION AND RESEARCH   (India)

^c MASARYK UNIVERSITY   (Czech Republic)

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS THALIANA; ARTICLE; CHROMOSOME ANALYSIS; CHROMOSOME REARRANGEMENT; COPY NUMBER VARIATION; DNA STRAND BREAKAGE; FLUORESCENCE IN SITU HYBRIDIZATION; GENE REARRANGEMENT; GENOME ELIMINATION; GENOMIC INSTABILITY; GENOMICS; NEOPLASM; NONHUMAN; SEQUENCE ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM; ARABIDOPSIS; CHROMOSOME ABERRATION; DNA DAMAGE; DNA END JOINING REPAIR; DNA SEQUENCE; GENETICS; GENOTYPE; HYBRIDIZATION; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYSIOLOGY; PLANT GENOME;

ARABIDOPSIS;

ATP DEPENDENT DNA LIGASE; DNA LIGASE; PRIMER DNA;

ARABIDOPSIS; BASE SEQUENCE; CHROMOSOME ABERRATIONS; CYTOGENETIC ANALYSIS; DNA DAMAGE; DNA END-JOINING REPAIR; DNA LIGASE ATP; DNA LIGASES; DNA PRIMERS; GENOME, PLANT; GENOMIC INSTABILITY; GENOTYPE; HYBRIDIZATION, GENETIC; MOLECULAR SEQUENCE DATA; POLYMORPHISM, SINGLE NUCLEOTIDE; SEQUENCE ANALYSIS, DNA;

EID: 84930683882     PISSN: None     EISSN: 2050084X     Source Type: Journal    
DOI: 10.7554/eLife.06516     Document Type: Article

References (37)

1. Verdaasdonk, J. S. & Bloom, K. Nature reviews. Molecular cell biology 12, 320- 332, doi:10.1038/nrm3107 (2011)
2. Ravi, M. & Chan, S. W. Nature 464, 615-618, doi:10.1038/nature08842 (2010).
3. Ravi, M. et al. Genetics 186, 461-471, doi:10.1534/genetics.110.120337 (2010)
4. Maheshwari, S. et al. PLoS genetics 11, e1004970, doi:10.1371/journal.pgen.1004970 (2015)
5. Ravi, M. et al. Nat Commun 5, doi:10.1038/ncomms6334 (2014).
6. Sanei, M., Pickering, R., Kumke, K., Nasuda, S. & Houben, A. Proceedings of the National Academy of Sciences of the United States of America 108, E498-505, doi:10.1073/pnas.1103190108 (2011)
7. McClintock, B. Science 226, 792-801 (1984).
8. Gordon, D. J., Resio, B. & Pellman, D. Nature reviews. Genetics 13, 189-203, doi:10.1038/nrg3123 (2012)
9. Janssen, A., van der Burg, M., Szuhai, K., Kops, G. J. & Medema, R. H. Science 333, 1895-1898, doi:10.1126/science.1210214 (2011)
10. Crasta, K. et al. Nature 482, 53-58, doi:10.1038/nature10802 (2012).
11. Hatch, E. M., Fischer, A. H., Deerinck, T. J. & Hetzer, M. W. Cell 154, 47-60, doi:10.1016/j.cell.2013.06.007 (2013)
12. Zhang, C. Z., Leibowitz, M. L. & Pellman, D. Genes & development 27, 2513- 2530, doi:10.1101/gad.229559.113 (2013)
13. Jones, M. J. & Jallepalli, P. V. Developmental cell 23, 908-917, doi:10.1016/j.devcel.2012.10.010 (2012)
14. Liu, P. et al. Cell 146, 889-903, doi:10.1016/j.cell.2011.07.042 (2011).
15. Stephens, P. J. et al. Cell 144, 27-40, doi:10.1016/j.cell.2010.11.055 (2011)
16. Hastings, P. J., Ira, G. & Lupski, J. R. PLoS genetics 5, e1000327, doi:10.1371/journal.pgen.1000327 (2009)
17. Comai, L., Madlung, A., Josefsson, C. & Tyagi, A. Philosophical transactions of the Royal Society of London. Series B, Biological sciences 358, 1149-1155, doi:10.1098/rstb.2003.1305 (2003)
18. Koornneef, M. & Vanderveen, J. H. Genetica 61, 41-46, doi:Doi 10.1007/Bf00563230 (1983)
19. Steinitz-Sears, L. M. Genetics 48, 483-490 (1963)
20. Henry, I. M., Dilkes, B. P., Miller, E. S., Burkart-Waco, D. & Comai, L. Genetics 186, 1231-1245, doi:10.1534/genetics.110.121079 (2010)
21. Henry, I. M., Dilkes, B. P., Tyagi, A. P., Lin, H. Y. & Comai, L. Heredity 103, 458-468, doi:10.1038/hdy.2009.81 (2009)
22. Huettel, B., Kreil, D. P., Matzke, M. & Matzke, A. J. PLoS genetics 4, e1000226, doi:10.1371/journal.pgen.1000226 (2008)
23. Henry, I. M., Dilkes, B. P. & Comai, L. PLoS genetics 3, e70, doi:10.1371/journal.pgen.0030070 (2007)
24. Gernand, D. et al. The Plant cell 17, 2431-2438, doi:10.1105/tpc.105.034249 (2005)
25. Subrahmanyam, N. C. & Kasha, K. J. Chromosoma 42, 111-125, doi:Doi 10.1007/Bf00320934 (1973)
26. Lamesch, P. et al. Nucleic acids research 40, D1202-1210, doi:10.1093/nar/gkr1090 (2012)
27. Costas, C. et al. Nature structural & molecular biology 18, 395-400, doi:10.1038/nsmb.1988 (2011)
28. Zhang, W., Zhang, T., Wu, Y. & Jiang, J. The Plant cell 24, 2719-2731, doi:10.1105/tpc.112.098061 (2012)
29. Sequeira-Mendes, J. et al. The Plant cell 26, 2351-2366, doi:10.1105/tpc.114.124578 (2014)
30. Korbel, J. O. & Campbell, P. J. Cell 152, 1226-1236, doi:10.1016/j.cell.2013.02.023 (2013)
31. Kloosterman, W. P. & Cuppen, E. Current opinion in cell biology 25, 341-348, doi:10.1016/j.ceb.2013.02.008 (2013)
32. Wang, Z. et al. Cell cycle 13, 1345-1356, doi:10.4161/cc.28296 (2014).
33. Cai, H. et al. BMC genomics 15, 82, doi:10.1186/1471-2164-15-82 (2014)
34. Morrison, C. D. et al. Proceedings of the National Academy of Sciences of the United States of America 111, E672-681, doi:10.1073/pnas.1313580111 (2014)
35. Li, H. & Durbin, R. Bioinformatics 25, 1754-1760, doi:10.1093/bioinformatics/btp324 (2009)
36. Lysak, M. A. & Mandakova, T. Methods in molecular biology 990, 13-24, doi:10.1007/978-1-62703-333-6_2 (2013)
37. Ruby, J. G., Bellare, P. & Derisi, J. L. G3 3, 865-880, doi:10.1534/g3.113.005967 (2013).