Genetics, Vol. 154, 823-835, February 2000, Copyright © 2000

Saturation Mapping of a Gene-Rich Recombination Hot Spot Region in Wheat

Justin D. Farisa, Karri M. Haena, and Bikram S. Gilla
a Wheat Genetics Resource Center and Department of Plant Pathology, Throckmorton Plant Sciences Center, Kansas State University, Manhattan, Kansas 66506

Corresponding author: Bikram S. Gill, Department of Plant Pathology, 4307 Throckmorton Plant Sciences Ctr., Kansas State University, Manhattan, KS 66506., bsg{at}ksu.edu (E-mail)

Communicating editor: J. A. BIRCHLER

Physical mapping of wheat chromosomes has revealed small chromosome segments of high gene density and frequent recombination interspersed with relatively large regions of low gene density and infrequent recombination. We constructed a detailed genetic and physical map of one highly recombinant region on the long arm of chromosome 5B. This distally located region accounts for 4% of the physical size of the long arm and at least 30% of the recombination along the entire chromosome. Multiple crossovers occurred within this region, and the degree of recombination is at least 11-fold greater than the genomic average. Characteristics of the region such as gene order and frequency of recombination appear to be conserved throughout the evolution of the Triticeae. The region is more prone to chromosome breakage by gametocidal gene action than gene-poor regions, and evidence for genomic instability was implied by loss of gene collinearity for six loci among the homeologous regions. These data suggest that a unique level of chromatin organization exists within gene-rich recombination hot spots. The many agronomically important genes in this region should be accessible by positional cloning.




This article has been cited by other articles:


Home page
 GeneticsHome page
X. Wan, J. Weng, H. Zhai, J. Wang, C. Lei, X. Liu, T. Guo, L. Jiang, N. Su, and J. Wan
Quantitative Trait Loci (QTL) Analysis For Rice Grain Width and Fine Mapping of an Identified QTL Allele gw-5 in a Recombination Hotspot Region on Chromosome 5
Genetics, August 1, 2008; 179(4): 2239 - 2252.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
P. Zhang, W. Li, B. Friebe, and B. S. Gill
The Origin of a "Zebra" Chromosome in Wheat Suggests Nonhomologous Recombination as a Novel Mechanism for New Chromosome Evolution and Step Changes in Chromosome Number
Genetics, July 1, 2008; 179(3): 1169 - 1177.
[Abstract] [Full Text] [PDF]

Home page
 Crop Sci.Home page
T. L. Friesen, S. S. Xu, and M. O. Harris
Stem Rust, Tan Spot, Stagonospora nodorum Blotch, and Hessian Fly Resistance in Langdon Durum-Aegilops tauschii Synthetic Hexaploid Wheat Lines
Crop Sci., May 1, 2008; 48(3): 1062 - 1070.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
W. Li, L. Huang, and B. S. Gill
Recurrent Deletions of Puroindoline Genes at the Grain Hardness Locus in Four Independent Lineages of Polyploid Wheat1,[W],[OA]
Plant Physiology, January 1, 2008; 146(1): 200 - 212.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
D. R. See, S. Brooks, J. C. Nelson, G. Brown-Guedira, B. Friebe, and B. S. Gill
Gene evolution at the ends of wheat chromosomes.
PNAS, March 14, 2006; 103(11): 4162 - 4167.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
J. G. Walling, R. Shoemaker, N. Young, J. Mudge, and S. Jackson
Chromosome-Level Homeology in Paleopolyploid Soybean (Glycine max) Revealed Through Integration of Genetic and Chromosome Maps
Genetics, March 1, 2006; 172(3): 1893 - 1900.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
K. J. Simons, J. P. Fellers, H. N. Trick, Z. Zhang, Y.-S. Tai, B. S. Gill, and J. D. Faris
Molecular Characterization of the Major Wheat Domestication Gene Q
Genetics, January 1, 2006; 172(1): 547 - 555.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
K. S. Caldwell, J. Russell, P. Langridge, and W. Powell
Extreme Population-Dependent Linkage Disequilibrium Detected in an Inbreeding Plant Species, Hordeum vulgare
Genetics, January 1, 2006; 172(1): 557 - 567.
[Abstract] [Full Text] [PDF]

Home page
 Crop Sci.Home page
I. Ratnayaka, M. Baga, D. B. Fowler, and R. N. Chibbar
Construction and Characterization of a BAC Library of a Cold-Tolerant Hexaploid Wheat Cultivar
Crop Sci., June 24, 2005; 45(4): 1571 - 1577.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
E. van der Knaap, A. Sanyal, S. A. Jackson, and S. D. Tanksley
High-Resolution Fine Mapping and Fluorescence in Situ Hybridization Analysis of sun, a Locus Controlling Tomato Fruit Shape, Reveals a Region of the Tomato Genome Prone to DNA Rearrangements
Genetics, December 1, 2004; 168(4): 2127 - 2140.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
J. H. Peng, H. Zadeh, G. R. Lazo, J. P. Gustafson, S. Chao, O. D. Anderson, L. L. Qi, B. Echalier, B. S. Gill, M. Dilbirligi, et al.
Chromosome Bin Map of Expressed Sequence Tags in Homoeologous Group 1 of Hexaploid Wheat and Homoeology With Rice and Arabidopsis
Genetics, October 1, 2004; 168(2): 609 - 623.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
E. J. Conley, V. Nduati, J. L. Gonzalez-Hernandez, A. Mesfin, M. Trudeau-Spanjers, S. Chao, G. R. Lazo, D. D. Hummel, O. D. Anderson, L. L. Qi, et al.
A 2600-Locus Chromosome Bin Map of Wheat Homoeologous Group 2 Reveals Interstitial Gene-Rich Islands and Colinearity With Rice
Genetics, October 1, 2004; 168(2): 625 - 637.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
A. M. Linkiewicz, L. L. Qi, B. S. Gill, A. Ratnasiri, B. Echalier, S. Chao, G. R. Lazo, D. D. Hummel, O. D. Anderson, E. D. Akhunov, et al.
A 2500-Locus Bin Map of Wheat Homoeologous Group 5 Provides Insights on Gene Distribution and Colinearity With Rice
Genetics, October 1, 2004; 168(2): 665 - 676.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
H. S. Randhawa, M. Dilbirligi, D. Sidhu, M. Erayman, D. Sandhu, S. Bondareva, S. Chao, G. R. Lazo, O. D. Anderson, Miftahudin, et al.
Deletion Mapping of Homoeologous Group 6-Specific Wheat Expressed Sequence Tags
Genetics, October 1, 2004; 168(2): 677 - 686.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
K. G. Hossain, V. Kalavacharla, G. R. Lazo, J. Hegstad, M. J. Wentz, P. M. A. Kianian, K. Simons, S. Gehlhar, J. L. Rust, R. R. Syamala, et al.
A Chromosome Bin Map of 2148 Expressed Sequence Tag Loci of Wheat Homoeologous Group 7
Genetics, October 1, 2004; 168(2): 687 - 699.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
L. L. Qi, B. Echalier, S. Chao, G. R. Lazo, G. E. Butler, O. D. Anderson, E. D. Akhunov, J. Dvorak, A. M. Linkiewicz, A. Ratnasiri, et al.
A Chromosome Bin Map of 16,000 Expressed Sequence Tag Loci and Distribution of Genes Among the Three Genomes of Polyploid Wheat
Genetics, October 1, 2004; 168(2): 701 - 712.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
B. S. Gill, R. Appels, A.-M. Botha-Oberholster, C. R. Buell, J. L. Bennetzen, B. Chalhoub, F. Chumley, J. Dvorak, M. Iwanaga, B. Keller, et al.
A Workshop Report on Wheat Genome Sequencing: International Genome Research on Wheat Consortium
Genetics, October 1, 2004; 168(2): 1087 - 1096.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
K. G. Hossain, O. Riera-Lizarazu, V. Kalavacharla, M. I. Vales, S. S. Maan, and S. F. Kianian
Radiation Hybrid Mapping of the Species Cytoplasm-Specific (scsae) Gene in Wheat
Genetics, September 1, 2004; 168(1): 415 - 423.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
M. Erayman, D. Sandhu, D. Sidhu, M. Dilbirligi, P. S. Baenziger, and K. S. Gill
Demarcating the gene-rich regions of the wheat genome
Nucleic Acids Res., July 7, 2004; 32(12): 3546 - 3565.
[Abstract] [Full Text] [PDF]

Home page
 Crop Sci.Home page
D. R. See, M. Giroux, and B. S. Gill
Effect of Multiple Copies of Puroindoline Genes on Grain Softness
Crop Sci., July 1, 2004; 44(4): 1248 - 1253.
[Abstract] [Full Text] [PDF]

Home page
 Crop Sci.Home page
K. M. Haen, H. Lu, T. L. Friesen, and J. D. Faris
Genomic Targeting and High-Resolution Mapping of the Tsn1 Gene in Wheat
Crop Sci., May 1, 2004; 44(3): 951 - 962.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
M. E. Sorrells, M. La Rota, C. E. Bermudez-Kandianis, R. A. Greene, R. Kantety, J. D. Munkvold, Miftahudin, A. Mahmoud, X. Ma, P. J. Gustafson, et al.
Comparative DNA Sequence Analysis of Wheat and Rice Genomes
Genome Res., August 1, 2003; 13(8): 1818 - 1827.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
S. Brunner, B. Keller, and C. Feuillet
A Large Rearrangement Involving Genes and Low-Copy DNA Interrupts the Microcollinearity Between Rice and Barley at the Rph7 Locus
Genetics, June 1, 2003; 164(2): 673 - 683.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
J. D. Faris, J. P. Fellers, S. A. Brooks, and B. S. Gill
A Bacterial Artificial Chromosome Contig Spanning the Major Domestication Locus Q in Wheat and Identification of a Candidate Gene
Genetics, May 1, 2003; 164(1): 311 - 321.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
J. Peng, Y. Ronin, T. Fahima, M. S. Roder, Y. Li, E. Nevo, and A. Korol
Domestication quantitative trait loci in Triticum dicoccoides, the progenitor of wheat
PNAS, March 4, 2003; 100(5): 2489 - 2494.
[Abstract] [Full Text] [PDF]

Home page
 Crop Sci.Home page
R. Malik, G. L. Brown-Guedira, C. M. Smith, T. L. Harvey, and B. S. Gill
Genetic Mapping of Wheat Curl Mite Resistance Genes Cmc3 and Cmc4 in Common Wheat
Crop Sci., March 1, 2003; 43(2): 644 - 650.
[Abstract] [Full Text] [PDF]

Home page
 Crop Sci.Home page
L. Maleki, J. D. Faris, R. L. Bowden, B. S. Gill, and J. P. Fellers
Physical and Genetic Mapping of Wheat Kinase Analogs and NBS-LRR Resistance Gene Analogs
Crop Sci., March 1, 2003; 43(2): 660 - 670.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
W. Ramakrishna, J. Emberton, M. Ogden, P. SanMiguel, and J. L. Bennetzen
Structural Analysis of the Maize Rp1 Complex Reveals Numerous Sites and Unexpected Mechanisms of Local Rearrangement
PLANT CELL, December 1, 2002; 14(12): 3213 - 3223.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
W. Ramakrishna, J. Dubcovsky, Y.-J. Park, C. Busso, J. Emberton, P. SanMiguel, and J. L. Bennetzen
Different Types and Rates of Genome Evolution Detected by Comparative Sequence Analysis of Orthologous Segments From Four Cereal Genomes
Genetics, November 1, 2002; 162(3): 1389 - 1400.
[Abstract] [Full Text] [PDF]

Home page
 Crop Sci.Home page
D. Sandhu, D. Sidhu, and K. S. Gill
Identification of Expressed Sequence Markers for a Major Gene-Rich Region of Wheat Chromosome Group 1 Using RNA Fingerprinting-Differential Display
Crop Sci., July 1, 2002; 42(4): 1285 - 1290.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
M. N. Islam-Faridi, K. L. Childs, P. E. Klein, G. Hodnett, M. A. Menz, R. R. Klein, W. L. Rooney, J. E. Mullet, D. M. Stelly, and H. J. Price
A Molecular Cytogenetic Map of Sorghum Chromosome 1: Fluorescence in Situ Hybridization Analysis With Mapped Bacterial Artificial Chromosomes
Genetics, May 1, 2002; 161(1): 345 - 353.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
H. Yao, Q. Zhou, J. Li, H. Smith, M. Yandeau, B. J. Nikolau, and P. S. Schnable
From the Cover: Molecular characterization of meiotic recombination across the 140-kb multigenic a1-sh2 interval of maize
PNAS, April 30, 2002; 99(9): 6157 - 6162.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
W. Li and B. S. Gill
The Colinearity of the Sh2/A1 Orthologous Region in Rice, Sorghum and Maize Is Interrupted and Accompanied by Genome Expansion in the Triticeae
Genetics, March 1, 2002; 160(3): 1153 - 1162.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
D. Sandhu and K. S. Gill
Gene-Containing Regions of Wheat and the Other Grass Genomes
Plant Physiology, March 1, 2002; 128(3): 803 - 811.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
J. Faris, A. Sirikhachornkit, R. Haselkorn, B. Gill, and P. Gornicki
Chromosome Mapping and Phylogenetic Analysis of the Cytosolic Acetyl-CoA Carboxylase Loci in Wheat
Mol. Biol. Evol., September 1, 2001; 18(9): 1720 - 1733.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
D. Sandhu, J. A. Champoux, S. N. Bondareva, and K. S. Gill
Identification and Physical Localization of Useful Genes and Markers to a Major Gene-Rich Region on Wheat Group 1S Chromosomes
Genetics, April 1, 2001; 157(4): 1735 - 1747.
[Abstract] [Full Text]

Home page
 GeneticsHome page
Z. Cheng, G. G. Presting, C. R. Buell, R. A. Wing, and J. Jiang
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, April 1, 2001; 157(4): 1749 - 1757.
[Abstract] [Full Text]

Home page
 Proc. Natl. Acad. Sci. USAHome page
N. Stein, C. Feuillet, T. Wicker, E. Schlagenhauf, and B. Keller
Subgenome chromosome walking in wheat: A 450-kb physical contig in Triticum monococcum L. spans the Lr10 resistance locus in hexaploid wheat (Triticum aestivum L.)
PNAS, November 8, 2000; (2000) 230361597.
[Abstract] [Full Text]

Home page
 Genome ResHome page
J. Peng, A. B. Korol, T. Fahima, M. S. Röder, Y. I. Ronin, Y. C. Li, and E. Nevo
Molecular Genetic Maps in Wild Emmer Wheat, Triticum dicoccoides: Genome-Wide Coverage, Massive Negative Interference, and Putative Quasi-Linkage
Genome Res., October 1, 2000; 10(10): 1509 - 1531.
[Abstract] [Full Text]

Home page
 Proc. Natl. Acad. Sci. USAHome page
H. Yao, Q. Zhou, J. Li, H. Smith, M. Yandeau, B. J. Nikolau, and P. S. Schnable
From the Cover: Molecular characterization of meiotic recombination across the 140-kb multigenic a1-sh2 interval of maize
PNAS, April 30, 2002; 99(9): 6157 - 6162.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
N. Stein, C. Feuillet, T. Wicker, E. Schlagenhauf, and B. Keller
Subgenome chromosome walking in wheat: A 450-kb physical contig in Triticum monococcum L. spans the Lr10 resistance locus in hexaploid wheat (Triticum aestivum L.)
PNAS, November 21, 2000; 97(24): 13436 - 13441.
[Abstract] [Full Text] [PDF]