Chromosome-level homeology in paleopolyploid soybean (Glycine max) revealed through integration of genetic and chromosome maps

Genetics

Volumn 172, Issue 3, 2006, Pages 1893-1900

  Walling, Jason G ^a   Shoemaker, Randy ^b   Young, Nevin ^c   Mudge, Joann ^c   Jackson, Scott ^a  

^a PURDUE UNIVERSITY   (United States)

^b IOWA STATE UNIVERSITY   (United States)

^c UNIVERSITY OF MINNESOTA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

REPETITIVE DNA;

ARTICLE; BACTERIAL ARTIFICIAL CHROMOSOME; CHROMOSOME; CHROMOSOME 19; CHROMOSOME ARM; CHROMOSOME DUPLICATION; CHROMOSOME MAP; CHROMOSOME PAIRING; CHROMOSOME STRUCTURE; CONTROLLED STUDY; DNA SEQUENCE; EUCHROMATIN; FLUORESCENCE IN SITU HYBRIDIZATION; GENE LOCUS; GENE MAPPING; GENE PROBE; GENETIC LINKAGE; GENETIC RECOMBINATION; HETEROCHROMATIN; KARYOTYPE; MOLECULAR CLONING; NONHUMAN; PACHYTENE; POLYPLOIDY; PRIORITY JOURNAL; SOYBEAN;

CHROMOSOMES, ARTIFICIAL, BACTERIAL; GENOME, PLANT; HETEROCHROMATIN; IN SITU HYBRIDIZATION, FLUORESCENCE; PHYSICAL CHROMOSOME MAPPING; POLYPLOIDY; RECOMBINATION, GENETIC; REPETITIVE SEQUENCES, NUCLEIC ACID; SOYBEANS; SYNTENY;

BACTERIA (MICROORGANISMS); EUKARYOTA; GLYCINE MAX;

EID: 33645235338     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.105.051466     Document Type: Article

References (36)

1. ARUMUGANATHAN, K., and E. D. EARLE, 1991 Nuclear DNA content of some important plant species. Plant Mol. Biol. Rep. 9: 208-219.
2. BENNETZEN, J. L., J. MA and K. M. DEVOS, 2005 Mechanisms of recent genome size variation in flowering plants. Ann. Bot. 95: 127-132.
3. BLANC, G., and K. H. WOLFE, 2004 Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes. Plant Cell 16: 1667-1678.
4. BLANC, G., K. HOKAMP and K. H. WOLFE, 2003 A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome. Genome Res. 13: 137-144.
5. CHENG, Z. K., G. G. PRESTING, C. R. BUELL, R. A. WING and J. JIANG, 2001 High- resolution pachytene chromosome mapping of bacterial artificial chromosomes anchored by genetic markers reveals the centromere location and the distribution of genetic recombination along chromosome 10 of rice. Genetics 157: 1749-1757.
6. CHEUNG, V. G., N. NOWAK, W. JANG, I. R. KIRSCH, S. ZHAO et al., 2001 Integration of cytogenetic landmarks into the draft sequence of the human genome. Nature 409: 953-958.
7. CRANE, C. F., W. D. BEVERSDORF and E. T. BINGHAM, 1984 Chromosome pairing and associations at meiosis in haploid soybean (Glycine max). Can. J. Genet. Cytol. 24: 293-300.
8. CREGAN, P. B., T. JARVIK, A. L. BUSH, R. C. SHOEMAKER, K. G. LARK et al., 1999 An integrated genetic linkage map of the soybean genome. Crop Sci. 39: 1464-1490.
9. DEVOS, K. M., J. K. BROWN and J. L. BENNETZEN, 2002 Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis. Genome Res. 12: 1075-1079.
10. DOYLE, J. J., J. L. DOYLE, J. T. RAUSCHER and A. H. D. BROWN, 2004 Evolution of perennial soybean polyploid complex (Glycine subgenus Glycine): a study of contrasts. Biol. J. Linn. Soc. 82: 583-597.
11. FARIS, J. D., K. M. HAEN and B. S. GILL, 2000 Saturation mapping of a gene-rich recombination hot spot region in wheat. Genetics 154: 823-825.
12. GOLDBERG, R. B., 1978 DNA sequence organization in the soybean plant. Biochem. Genet. 16: 45-68.
13. GURLEY, W. B., A. G. HEPBURN and J. L. KEY, 1979 Sequence organization of the soybean genome. Biochim. Biophys. Acta 561: 167-183.
14. JACKSON, S. A., M-L. WANG, H. M. GOODMAN and J. JIANG, 1998 Application of fiber-FISH in physical mapping of Arabidopsis thaliana. Genome 41: 566-572.
15. KEIM, P., B. W. DIERS, T. C. OLSON and R. C. SHOEMAKER, 1990 RFLP mapping in soybean: association between marker loci and variation in quantitative traits. Genetics 126: 735-742.
16. KULIKOVA, O., G. GUALTIERI, R. GEURTS, D-J. KIM, D. COOK et al., 2001 Integration of the FISH pachytene and genetic maps of Medicago truncatula. Plant J. 27: 49-58.
17. LEVY, A. L., and M. FELDMAN, 2002 The impact of polyploidy on grass genome evolution. Plant Physiol. 130: 1587-1593.
18. LICHTEN, M., and A. S. H. GOLDMAN, 1995 Meiotic recombination hotspots. Annu. Rev. Genet. 29: 423-444.
19. LIN, J-Y., B. HASS-JACOBUS, P. SANMIGUEL, J. G. WALLING, Y. YUAN et al., 2005 Molecular and cytogenetic characterization of gene-poor, heterochromatic regions of Glycine max L. Merr. Genetics 170: 1221-1230.
20. MAREK, L. M., J. MUDGE, L. DARNIELLE, D. GRANT, N. HANSON et al., 2001 Soybean genomic survey: BAC-end sequences near RFLP and SSR markers. Genome 44: 572-581.
21. MUDGE, J., Y. HUIHUANG, R. L. DENNY, D. K. HOWE, D. DANESH et al., 2004 Soybean bacterial artifical chromosome contigs anchored with RFLPs: insights into genome duplication and gene clustering. Genome 47: 361-372.
22. OHNO, S., 1970 Evolution by Gene Duplication. Allen & Unwin, London.
23. PAGEL, J., J. G. WALLING, N. D. YOUNG, R. C. SHOEMAKER and S. A. JACKSON, 2004 Segmental duplications within the Glycine max genome revealed by fluorescence in situ hybridization of bacterial artificial chromosomes. Genome 47: 764-768.
24. SCHLUETER, J. A., P. DIXON, C. GRANGER, D. GRANT, L. CLARK et al., 2004 Mining EST databases to resolve evolutionary events in major crop species. Genome 47: 868-876.
25. SHOEMAKER, R. C., K. POLZIN, J. LABATE, J. SPECHT, E. C. BRUMMER et al., 1996a Genome duplication in soybean (Glycine subgenus soja). Genetics 144: 329-338.
26. SHOEMAKER, R., T. OLSON and V. KANAZIN, 1996b Soybean genome organization: evolution of a legume genome in Genomes of Plants and Animals: Proceedings of the 21st Stadler Genetics Symposium, edited by J. P. Gustafson and R. B. Flavell. Columbia, MO.
27. SHOEMAKER, R., P. CREGAN and L. VODKIN, 2004 Soybean genomics, pp. 235-263 in Soybeans: Improvement, Production, and Uses, Ed. 3, edited by R. Boerma and J. E. Specht . American Society of Agronomy, Crop Science Society of America, Madison, WI.
28. SINGH, R. J., and T. HYMOWITZ, 1988 The genomic relationship between Glycine max (L.) Merr. and G. soja Sieb. and Zucc. as revealed by pachytene chromosome analysis. Theor. Appl. Genet. 76: 705-711.
29. SONG, Q., L. MAREK, R. SHOEMAKER, G. LARK, V. CONCIBIDO et al., 2004 A new integrated genetic linkage map of the soybean. Theor. Appl. Genet. 109: 122-128.
30. VISION, T. J., D. G. BROWN and S. D. TANKSLEY, 2000 The origins of genomic duplications in Arabidopsis. Science 290: 2114-2117.
31. WALLING, J. G., J. C. PIRES and S. A. JACKSON, 2005 Preparation of samples for comparative studies of plant chromosomes using in situ hybridization methods. Methods Enzymol. 395: 443-460.
32. WANG, X., X. SHI, B. HAO and J. LUO, 2005 Duplication and DNA segmental loss in the rice genome: implications for diploidization. New Phytol. 165: 937-946.
33. WOLFE, K. H., 2001 Yesterday's polyploids and the mystery of diploidization. Nat. Genet. Rev. 2: 333-341.
34. ZHONG, X., P. F. FRANSZ, E. J. VAN WENNEKES, P. ZABEL, A. VAN KAMMEN et al., 1996 High-resolution mapping on pachytene chromosomes and extended DNA fibres by fluorescence in-situ hybridisation. Plant Mol. Biol. Rep. 14: 232-242.
35. ZHU, Y.-L, Q-J. SONG, D. L. HYTEN, C. P. VAN TASSELL, L. K. MATUKUMALLI et al., 2003 Single-nucleotide polymorphisms in soybean. Genetics 163: 1123-1134.
36. ZOU, J. J., R. J. SINGH, J. LEE, S. J. XU, P. B. CREGAN et al., 2003 Assignment of molecular linkage groups to soybean chromosomes by primary trisomics. Theor. Appl. Genet. 107: 745-750.